-- dump date 20140618_184050 -- class Genbank::misc_feature -- table misc_feature_note -- id note 574087000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 574087000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 574087000003 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 574087000004 Walker A motif; other site 574087000005 ATP binding site [chemical binding]; other site 574087000006 Walker B motif; other site 574087000007 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 574087000008 arginine finger; other site 574087000009 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 574087000010 DnaA box-binding interface [nucleotide binding]; other site 574087000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 574087000012 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 574087000013 putative DNA binding surface [nucleotide binding]; other site 574087000014 dimer interface [polypeptide binding]; other site 574087000015 beta-clamp/clamp loader binding surface; other site 574087000016 beta-clamp/translesion DNA polymerase binding surface; other site 574087000017 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 574087000018 RNA binding surface [nucleotide binding]; other site 574087000019 recombination protein F; Reviewed; Region: recF; PRK00064 574087000020 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 574087000021 Walker A/P-loop; other site 574087000022 ATP binding site [chemical binding]; other site 574087000023 Q-loop/lid; other site 574087000024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087000025 ABC transporter signature motif; other site 574087000026 Walker B; other site 574087000027 D-loop; other site 574087000028 H-loop/switch region; other site 574087000029 Protein of unknown function (DUF721); Region: DUF721; pfam05258 574087000030 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 574087000031 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 574087000032 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087000033 Mg2+ binding site [ion binding]; other site 574087000034 G-X-G motif; other site 574087000035 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 574087000036 anchoring element; other site 574087000037 dimer interface [polypeptide binding]; other site 574087000038 ATP binding site [chemical binding]; other site 574087000039 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 574087000040 active site 574087000041 putative metal-binding site [ion binding]; other site 574087000042 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 574087000043 DNA gyrase subunit A; Validated; Region: PRK05560 574087000044 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 574087000045 CAP-like domain; other site 574087000046 active site 574087000047 primary dimer interface [polypeptide binding]; other site 574087000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574087000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574087000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574087000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574087000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574087000053 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 574087000054 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 574087000055 catalytic residues [active] 574087000056 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 574087000057 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 574087000058 tandem repeat interface [polypeptide binding]; other site 574087000059 oligomer interface [polypeptide binding]; other site 574087000060 active site residues [active] 574087000061 FeoA domain; Region: FeoA; pfam04023 574087000062 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 574087000063 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 574087000064 G1 box; other site 574087000065 GTP/Mg2+ binding site [chemical binding]; other site 574087000066 Switch I region; other site 574087000067 G2 box; other site 574087000068 G3 box; other site 574087000069 Switch II region; other site 574087000070 G4 box; other site 574087000071 G5 box; other site 574087000072 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 574087000073 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 574087000074 Nucleoside recognition; Region: Gate; pfam07670 574087000075 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 574087000076 Nucleoside recognition; Region: Gate; pfam07670 574087000077 manganese transport transcriptional regulator; Provisional; Region: PRK03902 574087000078 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 574087000079 putative DNA binding site [nucleotide binding]; other site 574087000080 putative Zn2+ binding site [ion binding]; other site 574087000081 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 574087000082 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 574087000083 trimer interface [polypeptide binding]; other site 574087000084 putative Zn binding site [ion binding]; other site 574087000085 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 574087000086 dimanganese center [ion binding]; other site 574087000087 CotJB protein; Region: CotJB; pfam12652 574087000088 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 574087000089 Helix-turn-helix domain; Region: HTH_17; pfam12728 574087000090 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 574087000091 homodimer interface [polypeptide binding]; other site 574087000092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087000093 catalytic residue [active] 574087000094 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 574087000095 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 574087000096 ligand binding site [chemical binding]; other site 574087000097 NAD binding site [chemical binding]; other site 574087000098 dimerization interface [polypeptide binding]; other site 574087000099 catalytic site [active] 574087000100 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 574087000101 putative L-serine binding site [chemical binding]; other site 574087000102 seryl-tRNA synthetase; Provisional; Region: PRK05431 574087000103 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 574087000104 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 574087000105 dimer interface [polypeptide binding]; other site 574087000106 active site 574087000107 motif 1; other site 574087000108 motif 2; other site 574087000109 motif 3; other site 574087000110 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 574087000111 nucleoside/Zn binding site; other site 574087000112 dimer interface [polypeptide binding]; other site 574087000113 catalytic motif [active] 574087000114 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 574087000115 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 574087000116 Walker A motif; other site 574087000117 ATP binding site [chemical binding]; other site 574087000118 Walker B motif; other site 574087000119 arginine finger; other site 574087000120 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 574087000121 hypothetical protein; Validated; Region: PRK00153 574087000122 recombination protein RecR; Reviewed; Region: recR; PRK00076 574087000123 RecR protein; Region: RecR; pfam02132 574087000124 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 574087000125 putative active site [active] 574087000126 putative metal-binding site [ion binding]; other site 574087000127 tetramer interface [polypeptide binding]; other site 574087000128 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 574087000129 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 574087000130 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 574087000131 4Fe-4S binding domain; Region: Fer4; cl02805 574087000132 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 574087000133 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 574087000134 dimer interface [polypeptide binding]; other site 574087000135 PYR/PP interface [polypeptide binding]; other site 574087000136 TPP binding site [chemical binding]; other site 574087000137 substrate binding site [chemical binding]; other site 574087000138 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 574087000139 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 574087000140 TPP-binding site [chemical binding]; other site 574087000141 putative dimer interface [polypeptide binding]; other site 574087000142 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087000143 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087000144 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 574087000145 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 574087000146 Walker A motif; other site 574087000147 ATP binding site [chemical binding]; other site 574087000148 Walker B motif; other site 574087000149 arginine finger; other site 574087000150 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 574087000151 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 574087000152 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 574087000153 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 574087000154 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 574087000155 active site 574087000156 thymidylate kinase; Validated; Region: tmk; PRK00698 574087000157 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 574087000158 TMP-binding site; other site 574087000159 ATP-binding site [chemical binding]; other site 574087000160 Protein of unknown function (DUF327); Region: DUF327; pfam03885 574087000161 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 574087000162 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 574087000163 Walker A motif; other site 574087000164 ATP binding site [chemical binding]; other site 574087000165 Walker B motif; other site 574087000166 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 574087000167 arginine finger; other site 574087000168 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 574087000169 Protein of unknown function (DUF972); Region: DUF972; pfam06156 574087000170 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 574087000171 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 574087000172 S-adenosylmethionine binding site [chemical binding]; other site 574087000173 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 574087000174 GIY-YIG motif/motif A; other site 574087000175 putative active site [active] 574087000176 putative metal binding site [ion binding]; other site 574087000177 Predicted methyltransferases [General function prediction only]; Region: COG0313 574087000178 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 574087000179 putative SAM binding site [chemical binding]; other site 574087000180 putative homodimer interface [polypeptide binding]; other site 574087000181 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 574087000182 NurA domain; Region: NurA; pfam09376 574087000183 HerA helicase [Replication, recombination, and repair]; Region: COG0433 574087000184 Domain of unknown function DUF87; Region: DUF87; pfam01935 574087000185 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 574087000186 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 574087000187 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 574087000188 active site 574087000189 HIGH motif; other site 574087000190 KMSKS motif; other site 574087000191 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 574087000192 tRNA binding surface [nucleotide binding]; other site 574087000193 anticodon binding site; other site 574087000194 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 574087000195 dimer interface [polypeptide binding]; other site 574087000196 putative tRNA-binding site [nucleotide binding]; other site 574087000197 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 574087000198 active site 574087000199 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 574087000200 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 574087000201 FeS/SAM binding site; other site 574087000202 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 574087000203 active site 574087000204 intersubunit interactions; other site 574087000205 catalytic residue [active] 574087000206 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 574087000207 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 574087000208 S-adenosylmethionine binding site [chemical binding]; other site 574087000209 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 574087000210 Transcriptional regulator [Transcription]; Region: IclR; COG1414 574087000211 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 574087000212 putative DNA binding site [nucleotide binding]; other site 574087000213 putative Zn2+ binding site [ion binding]; other site 574087000214 Bacterial transcriptional regulator; Region: IclR; pfam01614 574087000215 glutamate dehydrogenase; Provisional; Region: PRK09414 574087000216 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 574087000217 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 574087000218 NAD(P) binding site [chemical binding]; other site 574087000219 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 574087000220 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 574087000221 FAD binding pocket [chemical binding]; other site 574087000222 FAD binding motif [chemical binding]; other site 574087000223 phosphate binding motif [ion binding]; other site 574087000224 beta-alpha-beta structure motif; other site 574087000225 NAD binding pocket [chemical binding]; other site 574087000226 Iron coordination center [ion binding]; other site 574087000227 putative oxidoreductase; Provisional; Region: PRK12831 574087000228 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 574087000229 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 574087000230 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574087000231 FeoA domain; Region: FeoA; pfam04023 574087000232 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 574087000233 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 574087000234 G1 box; other site 574087000235 GTP/Mg2+ binding site [chemical binding]; other site 574087000236 G2 box; other site 574087000237 Switch I region; other site 574087000238 G3 box; other site 574087000239 Switch II region; other site 574087000240 G4 box; other site 574087000241 G5 box; other site 574087000242 Nucleoside recognition; Region: Gate; pfam07670 574087000243 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 574087000244 Nucleoside recognition; Region: Gate; pfam07670 574087000245 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087000246 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 574087000247 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 574087000248 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 574087000249 active site 574087000250 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 574087000251 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 574087000252 CryBP1 protein; Region: CryBP1; pfam07029 574087000253 CryBP1 protein; Region: CryBP1; pfam07029 574087000254 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087000255 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087000256 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 574087000257 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 574087000258 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087000259 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087000260 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 574087000261 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087000262 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087000263 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087000264 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087000265 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 574087000266 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 574087000267 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 574087000268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 574087000269 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 574087000270 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 574087000271 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087000272 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 574087000273 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 574087000274 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 574087000275 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 574087000276 active site 574087000277 pur operon repressor; Provisional; Region: PRK09213 574087000278 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 574087000279 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087000280 active site 574087000281 hypothetical protein; Provisional; Region: PRK06851 574087000282 NTPase; Region: NTPase_1; cl17478 574087000283 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 574087000284 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 574087000285 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 574087000286 DNA binding residues [nucleotide binding] 574087000287 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 574087000288 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 574087000289 active site 574087000290 putative substrate binding pocket [chemical binding]; other site 574087000291 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 574087000292 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 574087000293 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 574087000294 Substrate binding site; other site 574087000295 Mg++ binding site; other site 574087000296 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 574087000297 active site 574087000298 substrate binding site [chemical binding]; other site 574087000299 CoA binding site [chemical binding]; other site 574087000300 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 574087000301 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 574087000302 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087000303 active site 574087000304 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 574087000305 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 574087000306 5S rRNA interface [nucleotide binding]; other site 574087000307 CTC domain interface [polypeptide binding]; other site 574087000308 L16 interface [polypeptide binding]; other site 574087000309 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 574087000310 putative active site [active] 574087000311 catalytic residue [active] 574087000312 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 574087000313 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 574087000314 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 574087000315 ATP binding site [chemical binding]; other site 574087000316 putative Mg++ binding site [ion binding]; other site 574087000317 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 574087000318 nucleotide binding region [chemical binding]; other site 574087000319 ATP-binding site [chemical binding]; other site 574087000320 TRCF domain; Region: TRCF; pfam03461 574087000321 stage V sporulation protein T; Region: spore_V_T; TIGR02851 574087000322 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 574087000323 stage V sporulation protein B; Region: spore_V_B; TIGR02900 574087000324 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 574087000325 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 574087000326 homodimer interface [polypeptide binding]; other site 574087000327 active site 574087000328 SAM binding site [chemical binding]; other site 574087000329 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 574087000330 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 574087000331 homodimer interface [polypeptide binding]; other site 574087000332 metal binding site [ion binding]; metal-binding site 574087000333 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 574087000334 homodimer interface [polypeptide binding]; other site 574087000335 active site 574087000336 putative chemical substrate binding site [chemical binding]; other site 574087000337 metal binding site [ion binding]; metal-binding site 574087000338 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 574087000339 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 574087000340 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 574087000341 Stage II sporulation protein; Region: SpoIID; pfam08486 574087000342 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 574087000343 YabP family; Region: YabP; cl06766 574087000344 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 574087000345 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 574087000346 Septum formation initiator; Region: DivIC; pfam04977 574087000347 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 574087000348 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 574087000349 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 574087000350 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 574087000351 RNA binding site [nucleotide binding]; other site 574087000352 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 574087000353 RNA binding site [nucleotide binding]; other site 574087000354 PBP superfamily domain; Region: PBP_like_2; cl17296 574087000355 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 574087000356 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 574087000357 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 574087000358 dimer interface [polypeptide binding]; other site 574087000359 conserved gate region; other site 574087000360 putative PBP binding loops; other site 574087000361 ABC-ATPase subunit interface; other site 574087000362 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 574087000363 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 574087000364 dimer interface [polypeptide binding]; other site 574087000365 conserved gate region; other site 574087000366 putative PBP binding loops; other site 574087000367 ABC-ATPase subunit interface; other site 574087000368 Protein of unknown function (DUF501); Region: DUF501; pfam04417 574087000369 exopolyphosphatase; Region: exo_poly_only; TIGR03706 574087000370 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 574087000371 nucleotide binding site [chemical binding]; other site 574087000372 stage II sporulation protein E; Region: spore_II_E; TIGR02865 574087000373 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 574087000374 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 574087000375 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 574087000376 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 574087000377 Ligand Binding Site [chemical binding]; other site 574087000378 TilS substrate binding domain; Region: TilS; pfam09179 574087000379 TilS substrate C-terminal domain; Region: TilS_C; smart00977 574087000380 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 574087000381 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087000382 active site 574087000383 FtsH Extracellular; Region: FtsH_ext; pfam06480 574087000384 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 574087000385 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 574087000386 Walker A motif; other site 574087000387 ATP binding site [chemical binding]; other site 574087000388 Walker B motif; other site 574087000389 arginine finger; other site 574087000390 Peptidase family M41; Region: Peptidase_M41; pfam01434 574087000391 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 574087000392 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 574087000393 Potassium binding sites [ion binding]; other site 574087000394 Cesium cation binding sites [ion binding]; other site 574087000395 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 574087000396 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 574087000397 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 574087000398 oligomerization interface [polypeptide binding]; other site 574087000399 active site 574087000400 metal binding site [ion binding]; metal-binding site 574087000401 pantoate--beta-alanine ligase; Region: panC; TIGR00018 574087000402 Pantoate-beta-alanine ligase; Region: PanC; cd00560 574087000403 active site 574087000404 ATP-binding site [chemical binding]; other site 574087000405 pantoate-binding site; other site 574087000406 HXXH motif; other site 574087000407 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 574087000408 tetramerization interface [polypeptide binding]; other site 574087000409 active site 574087000410 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 574087000411 putative DNA binding site [nucleotide binding]; other site 574087000412 putative Zn2+ binding site [ion binding]; other site 574087000413 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 574087000414 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 574087000415 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 574087000416 pantothenate kinase; Reviewed; Region: PRK13318 574087000417 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 574087000418 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 574087000419 FMN binding site [chemical binding]; other site 574087000420 active site 574087000421 catalytic residues [active] 574087000422 substrate binding site [chemical binding]; other site 574087000423 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 574087000424 NAD(P) binding pocket [chemical binding]; other site 574087000425 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 574087000426 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 574087000427 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 574087000428 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 574087000429 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 574087000430 dimer interface [polypeptide binding]; other site 574087000431 putative anticodon binding site; other site 574087000432 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 574087000433 motif 1; other site 574087000434 active site 574087000435 motif 2; other site 574087000436 motif 3; other site 574087000437 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 574087000438 putative homodimer interface [polypeptide binding]; other site 574087000439 putative homotetramer interface [polypeptide binding]; other site 574087000440 putative allosteric switch controlling residues; other site 574087000441 putative metal binding site [ion binding]; other site 574087000442 putative homodimer-homodimer interface [polypeptide binding]; other site 574087000443 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 574087000444 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 574087000445 S-adenosylmethionine binding site [chemical binding]; other site 574087000446 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 574087000447 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 574087000448 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 574087000449 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 574087000450 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 574087000451 ADP binding site [chemical binding]; other site 574087000452 phosphagen binding site; other site 574087000453 substrate specificity loop; other site 574087000454 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 574087000455 Clp amino terminal domain; Region: Clp_N; pfam02861 574087000456 Clp amino terminal domain; Region: Clp_N; pfam02861 574087000457 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 574087000458 Walker A motif; other site 574087000459 ATP binding site [chemical binding]; other site 574087000460 Walker B motif; other site 574087000461 arginine finger; other site 574087000462 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 574087000463 Walker A motif; other site 574087000464 ATP binding site [chemical binding]; other site 574087000465 Walker B motif; other site 574087000466 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 574087000467 DNA repair protein RadA; Provisional; Region: PRK11823 574087000468 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 574087000469 Walker A motif/ATP binding site; other site 574087000470 ATP binding site [chemical binding]; other site 574087000471 Walker B motif; other site 574087000472 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 574087000473 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 574087000474 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 574087000475 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 574087000476 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 574087000477 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 574087000478 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 574087000479 putative active site [active] 574087000480 TRAM domain; Region: TRAM; cl01282 574087000481 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 574087000482 substrate binding site; other site 574087000483 dimer interface; other site 574087000484 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 574087000485 homotrimer interaction site [polypeptide binding]; other site 574087000486 zinc binding site [ion binding]; other site 574087000487 CDP-binding sites; other site 574087000488 FOG: CBS domain [General function prediction only]; Region: COG0517 574087000489 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 574087000490 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 574087000491 hexamer interface [polypeptide binding]; other site 574087000492 RNA binding site [nucleotide binding]; other site 574087000493 Histidine-zinc binding site [chemical binding]; other site 574087000494 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 574087000495 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 574087000496 active site 574087000497 HIGH motif; other site 574087000498 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 574087000499 active site 574087000500 KMSKS motif; other site 574087000501 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 574087000502 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 574087000503 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 574087000504 trimer interface [polypeptide binding]; other site 574087000505 active site 574087000506 substrate binding site [chemical binding]; other site 574087000507 CoA binding site [chemical binding]; other site 574087000508 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 574087000509 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 574087000510 active site 574087000511 HIGH motif; other site 574087000512 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 574087000513 KMSKS motif; other site 574087000514 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 574087000515 tRNA binding surface [nucleotide binding]; other site 574087000516 anticodon binding site; other site 574087000517 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 574087000518 dimerization interface [polypeptide binding]; other site 574087000519 active site 574087000520 metal binding site [ion binding]; metal-binding site 574087000521 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 574087000522 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 574087000523 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 574087000524 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 574087000525 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 574087000526 VanW like protein; Region: VanW; pfam04294 574087000527 RNA polymerase factor sigma-70; Validated; Region: PRK08295 574087000528 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087000529 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 574087000530 elongation factor Tu; Reviewed; Region: PRK00049 574087000531 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 574087000532 G1 box; other site 574087000533 GEF interaction site [polypeptide binding]; other site 574087000534 GTP/Mg2+ binding site [chemical binding]; other site 574087000535 Switch I region; other site 574087000536 G2 box; other site 574087000537 G3 box; other site 574087000538 Switch II region; other site 574087000539 G4 box; other site 574087000540 G5 box; other site 574087000541 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 574087000542 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 574087000543 Antibiotic Binding Site [chemical binding]; other site 574087000544 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 574087000545 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 574087000546 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 574087000547 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 574087000548 putative homodimer interface [polypeptide binding]; other site 574087000549 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 574087000550 heterodimer interface [polypeptide binding]; other site 574087000551 homodimer interface [polypeptide binding]; other site 574087000552 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 574087000553 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 574087000554 23S rRNA interface [nucleotide binding]; other site 574087000555 L7/L12 interface [polypeptide binding]; other site 574087000556 putative thiostrepton binding site; other site 574087000557 L25 interface [polypeptide binding]; other site 574087000558 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 574087000559 mRNA/rRNA interface [nucleotide binding]; other site 574087000560 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 574087000561 23S rRNA interface [nucleotide binding]; other site 574087000562 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 574087000563 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 574087000564 core dimer interface [polypeptide binding]; other site 574087000565 peripheral dimer interface [polypeptide binding]; other site 574087000566 L10 interface [polypeptide binding]; other site 574087000567 L11 interface [polypeptide binding]; other site 574087000568 putative EF-Tu interaction site [polypeptide binding]; other site 574087000569 putative EF-G interaction site [polypeptide binding]; other site 574087000570 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 574087000571 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 574087000572 RPB12 interaction site [polypeptide binding]; other site 574087000573 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 574087000574 RPB10 interaction site [polypeptide binding]; other site 574087000575 RPB1 interaction site [polypeptide binding]; other site 574087000576 RPB11 interaction site [polypeptide binding]; other site 574087000577 RPB3 interaction site [polypeptide binding]; other site 574087000578 RPB12 interaction site [polypeptide binding]; other site 574087000579 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 574087000580 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 574087000581 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 574087000582 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 574087000583 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 574087000584 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 574087000585 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 574087000586 G-loop; other site 574087000587 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 574087000588 DNA binding site [nucleotide binding] 574087000589 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 574087000590 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 574087000591 S17 interaction site [polypeptide binding]; other site 574087000592 S8 interaction site; other site 574087000593 16S rRNA interaction site [nucleotide binding]; other site 574087000594 streptomycin interaction site [chemical binding]; other site 574087000595 23S rRNA interaction site [nucleotide binding]; other site 574087000596 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 574087000597 30S ribosomal protein S7; Validated; Region: PRK05302 574087000598 elongation factor G; Reviewed; Region: PRK00007 574087000599 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 574087000600 G1 box; other site 574087000601 putative GEF interaction site [polypeptide binding]; other site 574087000602 GTP/Mg2+ binding site [chemical binding]; other site 574087000603 Switch I region; other site 574087000604 G2 box; other site 574087000605 G3 box; other site 574087000606 Switch II region; other site 574087000607 G4 box; other site 574087000608 G5 box; other site 574087000609 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 574087000610 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 574087000611 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 574087000612 elongation factor Tu; Reviewed; Region: PRK00049 574087000613 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 574087000614 G1 box; other site 574087000615 GEF interaction site [polypeptide binding]; other site 574087000616 GTP/Mg2+ binding site [chemical binding]; other site 574087000617 Switch I region; other site 574087000618 G2 box; other site 574087000619 G3 box; other site 574087000620 Switch II region; other site 574087000621 G4 box; other site 574087000622 G5 box; other site 574087000623 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 574087000624 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 574087000625 Antibiotic Binding Site [chemical binding]; other site 574087000626 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 574087000627 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 574087000628 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 574087000629 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 574087000630 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 574087000631 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 574087000632 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 574087000633 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 574087000634 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 574087000635 putative translocon binding site; other site 574087000636 protein-rRNA interface [nucleotide binding]; other site 574087000637 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 574087000638 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 574087000639 G-X-X-G motif; other site 574087000640 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 574087000641 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 574087000642 23S rRNA interface [nucleotide binding]; other site 574087000643 5S rRNA interface [nucleotide binding]; other site 574087000644 putative antibiotic binding site [chemical binding]; other site 574087000645 L25 interface [polypeptide binding]; other site 574087000646 L27 interface [polypeptide binding]; other site 574087000647 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 574087000648 23S rRNA interface [nucleotide binding]; other site 574087000649 putative translocon interaction site; other site 574087000650 signal recognition particle (SRP54) interaction site; other site 574087000651 L23 interface [polypeptide binding]; other site 574087000652 trigger factor interaction site; other site 574087000653 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 574087000654 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 574087000655 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 574087000656 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 574087000657 RNA binding site [nucleotide binding]; other site 574087000658 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 574087000659 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 574087000660 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 574087000661 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 574087000662 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 574087000663 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 574087000664 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 574087000665 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 574087000666 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 574087000667 23S rRNA interface [nucleotide binding]; other site 574087000668 L21e interface [polypeptide binding]; other site 574087000669 5S rRNA interface [nucleotide binding]; other site 574087000670 L27 interface [polypeptide binding]; other site 574087000671 L5 interface [polypeptide binding]; other site 574087000672 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 574087000673 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 574087000674 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 574087000675 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 574087000676 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 574087000677 SecY translocase; Region: SecY; pfam00344 574087000678 adenylate kinase; Reviewed; Region: adk; PRK00279 574087000679 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 574087000680 AMP-binding site [chemical binding]; other site 574087000681 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 574087000682 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 574087000683 active site 574087000684 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 574087000685 rRNA binding site [nucleotide binding]; other site 574087000686 predicted 30S ribosome binding site; other site 574087000687 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 574087000688 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 574087000689 30S ribosomal protein S13; Region: bact_S13; TIGR03631 574087000690 30S ribosomal protein S11; Validated; Region: PRK05309 574087000691 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 574087000692 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 574087000693 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 574087000694 RNA binding surface [nucleotide binding]; other site 574087000695 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 574087000696 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 574087000697 alphaNTD homodimer interface [polypeptide binding]; other site 574087000698 alphaNTD - beta interaction site [polypeptide binding]; other site 574087000699 alphaNTD - beta' interaction site [polypeptide binding]; other site 574087000700 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 574087000701 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 574087000702 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 574087000703 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 574087000704 Walker A/P-loop; other site 574087000705 ATP binding site [chemical binding]; other site 574087000706 Q-loop/lid; other site 574087000707 ABC transporter signature motif; other site 574087000708 Walker B; other site 574087000709 D-loop; other site 574087000710 H-loop/switch region; other site 574087000711 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 574087000712 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 574087000713 Walker A/P-loop; other site 574087000714 ATP binding site [chemical binding]; other site 574087000715 Q-loop/lid; other site 574087000716 ABC transporter signature motif; other site 574087000717 Walker B; other site 574087000718 D-loop; other site 574087000719 H-loop/switch region; other site 574087000720 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 574087000721 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 574087000722 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 574087000723 dimerization interface 3.5A [polypeptide binding]; other site 574087000724 active site 574087000725 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 574087000726 23S rRNA interface [nucleotide binding]; other site 574087000727 L3 interface [polypeptide binding]; other site 574087000728 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 574087000729 Arginase family; Region: Arginase; cd09989 574087000730 agmatinase; Region: agmatinase; TIGR01230 574087000731 active site 574087000732 Mn binding site [ion binding]; other site 574087000733 oligomer interface [polypeptide binding]; other site 574087000734 hypothetical protein; Provisional; Region: PRK03881 574087000735 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 574087000736 AMMECR1; Region: AMMECR1; pfam01871 574087000737 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 574087000738 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 574087000739 FeS/SAM binding site; other site 574087000740 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 574087000741 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 574087000742 putative dimer interface [polypeptide binding]; other site 574087000743 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 574087000744 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 574087000745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087000746 homodimer interface [polypeptide binding]; other site 574087000747 catalytic residue [active] 574087000748 CAAX protease self-immunity; Region: Abi; pfam02517 574087000749 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 574087000750 FAD binding domain; Region: FAD_binding_4; pfam01565 574087000751 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 574087000752 Cysteine-rich domain; Region: CCG; pfam02754 574087000753 Cysteine-rich domain; Region: CCG; pfam02754 574087000754 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 574087000755 6-phosphogluconate dehydratase; Region: edd; TIGR01196 574087000756 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 574087000757 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 574087000758 PYR/PP interface [polypeptide binding]; other site 574087000759 dimer interface [polypeptide binding]; other site 574087000760 TPP binding site [chemical binding]; other site 574087000761 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 574087000762 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 574087000763 TPP-binding site [chemical binding]; other site 574087000764 dimer interface [polypeptide binding]; other site 574087000765 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 574087000766 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 574087000767 putative valine binding site [chemical binding]; other site 574087000768 dimer interface [polypeptide binding]; other site 574087000769 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 574087000770 ketol-acid reductoisomerase; Provisional; Region: PRK05479 574087000771 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 574087000772 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 574087000773 2-isopropylmalate synthase; Validated; Region: PRK00915 574087000774 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 574087000775 active site 574087000776 catalytic residues [active] 574087000777 metal binding site [ion binding]; metal-binding site 574087000778 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 574087000779 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 574087000780 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 574087000781 substrate binding site [chemical binding]; other site 574087000782 ligand binding site [chemical binding]; other site 574087000783 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 574087000784 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 574087000785 substrate binding site [chemical binding]; other site 574087000786 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 574087000787 tartrate dehydrogenase; Region: TTC; TIGR02089 574087000788 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 574087000789 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 574087000790 active site 574087000791 catalytic residues [active] 574087000792 metal binding site [ion binding]; metal-binding site 574087000793 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 574087000794 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 574087000795 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 574087000796 transmembrane helices; other site 574087000797 Probable transposase; Region: OrfB_IS605; pfam01385 574087000798 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087000799 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 574087000800 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 574087000801 iron binding site [ion binding]; other site 574087000802 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 574087000803 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 574087000804 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 574087000805 TPR repeat; Region: TPR_11; pfam13414 574087000806 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 574087000807 binding surface 574087000808 TPR motif; other site 574087000809 TPR repeat; Region: TPR_11; pfam13414 574087000810 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 574087000811 binding surface 574087000812 TPR repeat; Region: TPR_11; pfam13414 574087000813 TPR motif; other site 574087000814 TPR repeat; Region: TPR_11; pfam13414 574087000815 Stage II sporulation protein; Region: SpoIID; pfam08486 574087000816 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 574087000817 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 574087000818 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 574087000819 active site 574087000820 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 574087000821 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 574087000822 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087000823 Zn2+ binding site [ion binding]; other site 574087000824 Mg2+ binding site [ion binding]; other site 574087000825 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 574087000826 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 574087000827 active site 574087000828 motif I; other site 574087000829 motif II; other site 574087000830 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 574087000831 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 574087000832 putative ribose interaction site [chemical binding]; other site 574087000833 putative ADP binding site [chemical binding]; other site 574087000834 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 574087000835 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 574087000836 active site 574087000837 nucleotide binding site [chemical binding]; other site 574087000838 HIGH motif; other site 574087000839 KMSKS motif; other site 574087000840 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 574087000841 Cache domain; Region: Cache_1; pfam02743 574087000842 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 574087000843 dimerization interface [polypeptide binding]; other site 574087000844 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 574087000845 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087000846 dimer interface [polypeptide binding]; other site 574087000847 putative CheW interface [polypeptide binding]; other site 574087000848 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 574087000849 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 574087000850 catalytic loop [active] 574087000851 iron binding site [ion binding]; other site 574087000852 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 574087000853 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 574087000854 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 574087000855 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 574087000856 Sensor protein DegS; Region: DegS; pfam05384 574087000857 Histidine kinase; Region: HisKA_3; pfam07730 574087000858 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 574087000859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087000860 ATP binding site [chemical binding]; other site 574087000861 Mg2+ binding site [ion binding]; other site 574087000862 G-X-G motif; other site 574087000863 Flp/Fap pilin component; Region: Flp_Fap; cl01585 574087000864 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 574087000865 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 574087000866 TadE-like protein; Region: TadE; pfam07811 574087000867 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 574087000868 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 574087000869 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 574087000870 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 574087000871 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 574087000872 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 574087000873 Response regulator receiver domain; Region: Response_reg; pfam00072 574087000874 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087000875 active site 574087000876 phosphorylation site [posttranslational modification] 574087000877 intermolecular recognition site; other site 574087000878 dimerization interface [polypeptide binding]; other site 574087000879 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 574087000880 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 574087000881 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 574087000882 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 574087000883 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 574087000884 ATP binding site [chemical binding]; other site 574087000885 Walker A motif; other site 574087000886 hexamer interface [polypeptide binding]; other site 574087000887 Walker B motif; other site 574087000888 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 574087000889 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 574087000890 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 574087000891 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 574087000892 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 574087000893 Uncharacterized conserved protein [Function unknown]; Region: COG2006 574087000894 Domain of unknown function (DUF362); Region: DUF362; pfam04015 574087000895 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 574087000896 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087000897 RNA polymerase factor sigma-70; Validated; Region: PRK08295 574087000898 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087000899 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 574087000900 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 574087000901 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 574087000902 ATP binding site [chemical binding]; other site 574087000903 putative Mg++ binding site [ion binding]; other site 574087000904 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 574087000905 nucleotide binding region [chemical binding]; other site 574087000906 ATP-binding site [chemical binding]; other site 574087000907 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 574087000908 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087000909 active site 574087000910 flagellar operon protein TIGR03826; Region: YvyF 574087000911 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 574087000912 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 574087000913 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 574087000914 metal ion-dependent adhesion site (MIDAS); other site 574087000915 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 574087000916 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 574087000917 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 574087000918 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 574087000919 flagellar assembly protein FliW; Provisional; Region: PRK13285 574087000920 Global regulator protein family; Region: CsrA; cl00670 574087000921 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 574087000922 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 574087000923 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 574087000924 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 574087000925 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 574087000926 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 574087000927 putative metal binding site; other site 574087000928 Tetratricopeptide repeat; Region: TPR_12; pfam13424 574087000929 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 574087000930 binding surface 574087000931 TPR motif; other site 574087000932 Tetratricopeptide repeat; Region: TPR_12; pfam13424 574087000933 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 574087000934 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 574087000935 binding surface 574087000936 TPR repeat; Region: TPR_11; pfam13414 574087000937 TPR motif; other site 574087000938 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087000939 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 574087000940 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 574087000941 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 574087000942 Photosystem II Pbs27; Region: PSII_Pbs27; cl11841 574087000943 FlaG protein; Region: FlaG; pfam03646 574087000944 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 574087000945 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 574087000946 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 574087000947 Trp docking motif [polypeptide binding]; other site 574087000948 active site 574087000949 FOG: WD40-like repeat [Function unknown]; Region: COG1520 574087000950 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 574087000951 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 574087000952 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 574087000953 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 574087000954 Ligand Binding Site [chemical binding]; other site 574087000955 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 574087000956 AIR carboxylase; Region: AIRC; smart01001 574087000957 Protein of unknown function DUF111; Region: DUF111; cl03398 574087000958 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 574087000959 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 574087000960 putative dimer interface [polypeptide binding]; other site 574087000961 [2Fe-2S] cluster binding site [ion binding]; other site 574087000962 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 574087000963 dimer interface [polypeptide binding]; other site 574087000964 [2Fe-2S] cluster binding site [ion binding]; other site 574087000965 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 574087000966 dimer interface [polypeptide binding]; other site 574087000967 [2Fe-2S] cluster binding site [ion binding]; other site 574087000968 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 574087000969 SLBB domain; Region: SLBB; pfam10531 574087000970 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 574087000971 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 574087000972 4Fe-4S binding domain; Region: Fer4; pfam00037 574087000973 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087000974 4Fe-4S binding domain; Region: Fer4; pfam00037 574087000975 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 574087000976 catalytic loop [active] 574087000977 iron binding site [ion binding]; other site 574087000978 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 574087000979 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 574087000980 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 574087000981 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 574087000982 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 574087000983 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 574087000984 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 574087000985 substrate binding pocket [chemical binding]; other site 574087000986 membrane-bound complex binding site; other site 574087000987 hinge residues; other site 574087000988 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 574087000989 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 574087000990 dimer interface [polypeptide binding]; other site 574087000991 conserved gate region; other site 574087000992 putative PBP binding loops; other site 574087000993 ABC-ATPase subunit interface; other site 574087000994 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 574087000995 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 574087000996 Walker A/P-loop; other site 574087000997 ATP binding site [chemical binding]; other site 574087000998 Q-loop/lid; other site 574087000999 ABC transporter signature motif; other site 574087001000 Walker B; other site 574087001001 D-loop; other site 574087001002 H-loop/switch region; other site 574087001003 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 574087001004 30S subunit binding site; other site 574087001005 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 574087001006 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 574087001007 ATP binding site [chemical binding]; other site 574087001008 putative Mg++ binding site [ion binding]; other site 574087001009 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 574087001010 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 574087001011 nucleotide binding region [chemical binding]; other site 574087001012 ATP-binding site [chemical binding]; other site 574087001013 SEC-C motif; Region: SEC-C; pfam02810 574087001014 peptide chain release factor 2; Validated; Region: prfB; PRK00578 574087001015 PCRF domain; Region: PCRF; pfam03462 574087001016 RF-1 domain; Region: RF-1; pfam00472 574087001017 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 574087001018 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 574087001019 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 574087001020 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 574087001021 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 574087001022 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 574087001023 Uncharacterized conserved protein [Function unknown]; Region: COG1284 574087001024 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 574087001025 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 574087001026 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 574087001027 transketolase; Reviewed; Region: PRK05899 574087001028 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 574087001029 TPP-binding site [chemical binding]; other site 574087001030 dimer interface [polypeptide binding]; other site 574087001031 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 574087001032 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 574087001033 PYR/PP interface [polypeptide binding]; other site 574087001034 dimer interface [polypeptide binding]; other site 574087001035 TPP binding site [chemical binding]; other site 574087001036 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 574087001037 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 574087001038 C-terminal peptidase (prc); Region: prc; TIGR00225 574087001039 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 574087001040 protein binding site [polypeptide binding]; other site 574087001041 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 574087001042 Catalytic dyad [active] 574087001043 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 574087001044 NodB motif; other site 574087001045 putative active site [active] 574087001046 putative catalytic site [active] 574087001047 Zn binding site [ion binding]; other site 574087001048 excinuclease ABC subunit B; Provisional; Region: PRK05298 574087001049 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 574087001050 ATP binding site [chemical binding]; other site 574087001051 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 574087001052 nucleotide binding region [chemical binding]; other site 574087001053 ATP-binding site [chemical binding]; other site 574087001054 Ultra-violet resistance protein B; Region: UvrB; pfam12344 574087001055 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 574087001056 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 574087001057 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 574087001058 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 574087001059 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 574087001060 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 574087001061 GIY-YIG motif/motif A; other site 574087001062 active site 574087001063 catalytic site [active] 574087001064 putative DNA binding site [nucleotide binding]; other site 574087001065 metal binding site [ion binding]; metal-binding site 574087001066 UvrB/uvrC motif; Region: UVR; pfam02151 574087001067 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 574087001068 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 574087001069 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 574087001070 FOG: CBS domain [General function prediction only]; Region: COG0517 574087001071 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 574087001072 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 574087001073 substrate binding site [chemical binding]; other site 574087001074 ATP binding site [chemical binding]; other site 574087001075 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 574087001076 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 574087001077 NAD binding site [chemical binding]; other site 574087001078 dimer interface [polypeptide binding]; other site 574087001079 substrate binding site [chemical binding]; other site 574087001080 tetramer (dimer of dimers) interface [polypeptide binding]; other site 574087001081 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 574087001082 putative homodimer interface [polypeptide binding]; other site 574087001083 putative homotetramer interface [polypeptide binding]; other site 574087001084 putative allosteric switch controlling residues; other site 574087001085 putative metal binding site [ion binding]; other site 574087001086 putative homodimer-homodimer interface [polypeptide binding]; other site 574087001087 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 574087001088 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 574087001089 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 574087001090 active site 574087001091 motif I; other site 574087001092 motif II; other site 574087001093 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 574087001094 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 574087001095 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 574087001096 active site 574087001097 purine riboside binding site [chemical binding]; other site 574087001098 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 574087001099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 574087001100 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 574087001101 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 574087001102 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 574087001103 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 574087001104 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 574087001105 active site 574087001106 substrate binding site [chemical binding]; other site 574087001107 metal binding site [ion binding]; metal-binding site 574087001108 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 574087001109 GIY-YIG motif/motif A; other site 574087001110 putative active site [active] 574087001111 putative metal binding site [ion binding]; other site 574087001112 nicotinate phosphoribosyltransferase; Reviewed; Region: PRK08662 574087001113 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 574087001114 active site 574087001115 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 574087001116 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 574087001117 nucleotide binding site [chemical binding]; other site 574087001118 DOMON-like domain of various glycoside hydrolases; Region: DOMON_glucodextranase_like; cd09626 574087001119 putative ligand binding site [chemical binding]; other site 574087001120 Carbohydrate binding domain; Region: CBM_25; smart01066 574087001121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 574087001122 Uncharacterized conserved protein [Function unknown]; Region: COG1543 574087001123 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 574087001124 active site 574087001125 substrate binding site [chemical binding]; other site 574087001126 catalytic site [active] 574087001127 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 574087001128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087001129 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 574087001130 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 574087001131 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 574087001132 active site 574087001133 Substrate binding site; other site 574087001134 Mg++ binding site; other site 574087001135 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 574087001136 putative trimer interface [polypeptide binding]; other site 574087001137 putative CoA binding site [chemical binding]; other site 574087001138 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 574087001139 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 574087001140 active site 574087001141 substrate binding site [chemical binding]; other site 574087001142 metal binding site [ion binding]; metal-binding site 574087001143 putative hydrolase; Validated; Region: PRK09248 574087001144 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 574087001145 active site 574087001146 putative hydrolase; Validated; Region: PRK09248 574087001147 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 574087001148 active site 574087001149 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 574087001150 AAA domain; Region: AAA_18; pfam13238 574087001151 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 574087001152 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 574087001153 phosphate binding site [ion binding]; other site 574087001154 putative substrate binding pocket [chemical binding]; other site 574087001155 dimer interface [polypeptide binding]; other site 574087001156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 574087001157 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 574087001158 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 574087001159 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 574087001160 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 574087001161 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 574087001162 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 574087001163 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 574087001164 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 574087001165 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 574087001166 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 574087001167 Phosphoglycerate kinase; Region: PGK; pfam00162 574087001168 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 574087001169 substrate binding site [chemical binding]; other site 574087001170 hinge regions; other site 574087001171 ADP binding site [chemical binding]; other site 574087001172 catalytic site [active] 574087001173 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 574087001174 triosephosphate isomerase; Provisional; Region: PRK14565 574087001175 substrate binding site [chemical binding]; other site 574087001176 dimer interface [polypeptide binding]; other site 574087001177 catalytic triad [active] 574087001178 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 574087001179 phosphoglyceromutase; Provisional; Region: PRK05434 574087001180 enolase; Provisional; Region: eno; PRK00077 574087001181 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 574087001182 dimer interface [polypeptide binding]; other site 574087001183 metal binding site [ion binding]; metal-binding site 574087001184 substrate binding pocket [chemical binding]; other site 574087001185 Preprotein translocase SecG subunit; Region: SecG; pfam03840 574087001186 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 574087001187 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 574087001188 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 574087001189 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 574087001190 CoenzymeA binding site [chemical binding]; other site 574087001191 subunit interaction site [polypeptide binding]; other site 574087001192 PHB binding site; other site 574087001193 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087001194 Zn2+ binding site [ion binding]; other site 574087001195 Mg2+ binding site [ion binding]; other site 574087001196 ribonuclease R; Region: RNase_R; TIGR02063 574087001197 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 574087001198 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 574087001199 RNB domain; Region: RNB; pfam00773 574087001200 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 574087001201 RNA binding site [nucleotide binding]; other site 574087001202 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 574087001203 SmpB-tmRNA interface; other site 574087001204 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 574087001205 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 574087001206 dimer interface [polypeptide binding]; other site 574087001207 phosphorylation site [posttranslational modification] 574087001208 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087001209 ATP binding site [chemical binding]; other site 574087001210 Mg2+ binding site [ion binding]; other site 574087001211 G-X-G motif; other site 574087001212 S-layer homology domain; Region: SLH; pfam00395 574087001213 S-layer homology domain; Region: SLH; pfam00395 574087001214 S-layer homology domain; Region: SLH; pfam00395 574087001215 RRXRR protein; Region: RRXRR; pfam14239 574087001216 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 574087001217 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 574087001218 active site 574087001219 DNA polymerase I; Provisional; Region: PRK05755 574087001220 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 574087001221 active site 574087001222 metal binding site 1 [ion binding]; metal-binding site 574087001223 putative 5' ssDNA interaction site; other site 574087001224 metal binding site 3; metal-binding site 574087001225 metal binding site 2 [ion binding]; metal-binding site 574087001226 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 574087001227 putative DNA binding site [nucleotide binding]; other site 574087001228 putative metal binding site [ion binding]; other site 574087001229 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 574087001230 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 574087001231 active site 574087001232 DNA binding site [nucleotide binding] 574087001233 catalytic site [active] 574087001234 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 574087001235 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 574087001236 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 574087001237 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 574087001238 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 574087001239 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 574087001240 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 574087001241 CoA-binding site [chemical binding]; other site 574087001242 ATP-binding [chemical binding]; other site 574087001243 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 574087001244 active site 574087001245 dimer interfaces [polypeptide binding]; other site 574087001246 catalytic residues [active] 574087001247 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 574087001248 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 574087001249 N-acetyl-D-glucosamine binding site [chemical binding]; other site 574087001250 catalytic residue [active] 574087001251 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 574087001252 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 574087001253 CPxP motif; other site 574087001254 DsrE/DsrF-like family; Region: DrsE; pfam02635 574087001255 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 574087001256 dimerization interface [polypeptide binding]; other site 574087001257 putative ATP binding site [chemical binding]; other site 574087001258 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 574087001259 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087001260 Probable transposase; Region: OrfB_IS605; pfam01385 574087001261 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087001262 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 574087001263 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 574087001264 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 574087001265 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 574087001266 B12 binding site [chemical binding]; other site 574087001267 cobalt ligand [ion binding]; other site 574087001268 pyrrolysyl-tRNA synthetase, N-terminal region; Region: PylS_Nterm; TIGR03912 574087001269 pyrrolysyl-tRNA synthetase, C-terminal region; Region: PylS_Cterm; TIGR02367 574087001270 pyrrolysine biosynthesis radical SAM protein; Region: pyrrolys_PylB; TIGR03910 574087001271 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 574087001272 FeS/SAM binding site; other site 574087001273 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 574087001274 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 574087001275 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 574087001276 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 574087001277 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 574087001278 pyrrolysine biosynthesis protein PylC; Region: pyrrolys_PylC; TIGR03909 574087001279 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 574087001280 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 574087001281 pyrrolysine biosynthesis protein PylD; Region: pyrrolys_PylD; TIGR03911 574087001282 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 574087001283 NAD(P) binding pocket [chemical binding]; other site 574087001284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 574087001285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 574087001286 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 574087001287 putative dimerization interface [polypeptide binding]; other site 574087001288 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 574087001289 4Fe-4S binding domain; Region: Fer4; pfam00037 574087001290 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 574087001291 FMN-binding domain; Region: FMN_bind; cl01081 574087001292 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; pfam02508 574087001293 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 574087001294 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 574087001295 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 574087001296 catalytic loop [active] 574087001297 iron binding site [ion binding]; other site 574087001298 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 574087001299 FAD binding pocket [chemical binding]; other site 574087001300 conserved FAD binding motif [chemical binding]; other site 574087001301 phosphate binding motif [ion binding]; other site 574087001302 beta-alpha-beta structure motif; other site 574087001303 NAD binding pocket [chemical binding]; other site 574087001304 Peptidase family M48; Region: Peptidase_M48; cl12018 574087001305 prolyl-tRNA synthetase; Provisional; Region: PRK09194 574087001306 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 574087001307 dimer interface [polypeptide binding]; other site 574087001308 motif 1; other site 574087001309 active site 574087001310 motif 2; other site 574087001311 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 574087001312 putative deacylase active site [active] 574087001313 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 574087001314 active site 574087001315 motif 3; other site 574087001316 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 574087001317 anticodon binding site; other site 574087001318 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 574087001319 active site 574087001320 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 574087001321 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 574087001322 DNA binding site [nucleotide binding] 574087001323 catalytic residue [active] 574087001324 H2TH interface [polypeptide binding]; other site 574087001325 putative catalytic residues [active] 574087001326 turnover-facilitating residue; other site 574087001327 intercalation triad [nucleotide binding]; other site 574087001328 8OG recognition residue [nucleotide binding]; other site 574087001329 putative reading head residues; other site 574087001330 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 574087001331 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 574087001332 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 574087001333 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 574087001334 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 574087001335 ABC transporter; Region: ABC_tran_2; pfam12848 574087001336 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 574087001337 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 574087001338 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 574087001339 Walker A/P-loop; other site 574087001340 ATP binding site [chemical binding]; other site 574087001341 Q-loop/lid; other site 574087001342 ABC transporter signature motif; other site 574087001343 Walker B; other site 574087001344 D-loop; other site 574087001345 H-loop/switch region; other site 574087001346 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 574087001347 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 574087001348 FtsX-like permease family; Region: FtsX; pfam02687 574087001349 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 574087001350 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 574087001351 FtsX-like permease family; Region: FtsX; pfam02687 574087001352 Probable transposase; Region: OrfB_IS605; pfam01385 574087001353 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087001354 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 574087001355 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 574087001356 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 574087001357 Rubredoxin; Region: Rubredoxin; pfam00301 574087001358 iron binding site [ion binding]; other site 574087001359 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 574087001360 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 574087001361 Flavodoxin; Region: Flavodoxin_1; pfam00258 574087001362 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 574087001363 DNA-binding site [nucleotide binding]; DNA binding site 574087001364 RNA-binding motif; other site 574087001365 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 574087001366 germination protein YpeB; Region: spore_YpeB; TIGR02889 574087001367 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 574087001368 TrkA-N domain; Region: TrkA_N; pfam02254 574087001369 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 574087001370 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 574087001371 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 574087001372 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 574087001373 active site 574087001374 dimer interface [polypeptide binding]; other site 574087001375 motif 1; other site 574087001376 motif 2; other site 574087001377 motif 3; other site 574087001378 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 574087001379 anticodon binding site; other site 574087001380 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 574087001381 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 574087001382 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 574087001383 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 574087001384 23S rRNA binding site [nucleotide binding]; other site 574087001385 L21 binding site [polypeptide binding]; other site 574087001386 L13 binding site [polypeptide binding]; other site 574087001387 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 574087001388 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 574087001389 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 574087001390 TrkA-N domain; Region: TrkA_N; pfam02254 574087001391 TrkA-C domain; Region: TrkA_C; pfam02080 574087001392 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 574087001393 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 574087001394 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 574087001395 TrkA-N domain; Region: TrkA_N; pfam02254 574087001396 TrkA-C domain; Region: TrkA_C; pfam02080 574087001397 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 574087001398 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 574087001399 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 574087001400 YqzL-like protein; Region: YqzL; pfam14006 574087001401 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 574087001402 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 574087001403 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 574087001404 dimer interface [polypeptide binding]; other site 574087001405 motif 1; other site 574087001406 active site 574087001407 motif 2; other site 574087001408 motif 3; other site 574087001409 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 574087001410 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 574087001411 putative tRNA-binding site [nucleotide binding]; other site 574087001412 B3/4 domain; Region: B3_4; pfam03483 574087001413 tRNA synthetase B5 domain; Region: B5; smart00874 574087001414 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 574087001415 dimer interface [polypeptide binding]; other site 574087001416 motif 1; other site 574087001417 motif 3; other site 574087001418 motif 2; other site 574087001419 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 574087001420 Cell division protein ZapA; Region: ZapA; pfam05164 574087001421 CHD5-like protein; Region: CHD5; pfam04420 574087001422 Colicin V production protein; Region: Colicin_V; pfam02674 574087001423 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 574087001424 hypothetical protein; Provisional; Region: PRK08609 574087001425 active site 574087001426 primer binding site [nucleotide binding]; other site 574087001427 NTP binding site [chemical binding]; other site 574087001428 metal binding triad [ion binding]; metal-binding site 574087001429 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 574087001430 active site 574087001431 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 574087001432 MutS domain III; Region: MutS_III; pfam05192 574087001433 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 574087001434 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 574087001435 Walker A/P-loop; other site 574087001436 ATP binding site [chemical binding]; other site 574087001437 Q-loop/lid; other site 574087001438 ABC transporter signature motif; other site 574087001439 Walker B; other site 574087001440 D-loop; other site 574087001441 H-loop/switch region; other site 574087001442 Smr domain; Region: Smr; pfam01713 574087001443 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 574087001444 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 574087001445 Transglycosylase; Region: Transgly; pfam00912 574087001446 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 574087001447 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 574087001448 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 574087001449 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 574087001450 active site 574087001451 HIGH motif; other site 574087001452 dimer interface [polypeptide binding]; other site 574087001453 KMSKS motif; other site 574087001454 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 574087001455 RNA binding surface [nucleotide binding]; other site 574087001456 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 574087001457 PRC-barrel domain; Region: PRC; pfam05239 574087001458 PRC-barrel domain; Region: PRC; pfam05239 574087001459 Domain of unknown function DUF20; Region: UPF0118; pfam01594 574087001460 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 574087001461 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 574087001462 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 574087001463 motif 1; other site 574087001464 active site 574087001465 motif 2; other site 574087001466 motif 3; other site 574087001467 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 574087001468 hypothetical protein; Provisional; Region: PRK05473 574087001469 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 574087001470 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 574087001471 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 574087001472 YceG-like family; Region: YceG; pfam02618 574087001473 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 574087001474 dimerization interface [polypeptide binding]; other site 574087001475 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 574087001476 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 574087001477 S-adenosylmethionine binding site [chemical binding]; other site 574087001478 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 574087001479 Peptidase family U32; Region: Peptidase_U32; pfam01136 574087001480 4Fe-4S binding domain; Region: Fer4_5; pfam12801 574087001481 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 574087001482 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 574087001483 sporulation sigma factor SigK; Reviewed; Region: PRK05803 574087001484 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087001485 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 574087001486 DNA binding residues [nucleotide binding] 574087001487 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 574087001488 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087001489 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087001490 Transposase IS200 like; Region: Y1_Tnp; pfam01797 574087001491 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 574087001492 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 574087001493 active site 574087001494 motif I; other site 574087001495 motif II; other site 574087001496 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 574087001497 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 574087001498 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 574087001499 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 574087001500 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 574087001501 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 574087001502 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 574087001503 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 574087001504 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 574087001505 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 574087001506 Walker A/P-loop; other site 574087001507 ATP binding site [chemical binding]; other site 574087001508 Q-loop/lid; other site 574087001509 ABC transporter signature motif; other site 574087001510 Walker B; other site 574087001511 D-loop; other site 574087001512 H-loop/switch region; other site 574087001513 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 574087001514 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 574087001515 dimer interface [polypeptide binding]; other site 574087001516 conserved gate region; other site 574087001517 putative PBP binding loops; other site 574087001518 ABC-ATPase subunit interface; other site 574087001519 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 574087001520 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 574087001521 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 574087001522 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 574087001523 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 574087001524 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 574087001525 dimer interface [polypeptide binding]; other site 574087001526 conserved gate region; other site 574087001527 putative PBP binding loops; other site 574087001528 ABC-ATPase subunit interface; other site 574087001529 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 574087001530 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 574087001531 B12 binding site [chemical binding]; other site 574087001532 cobalt ligand [ion binding]; other site 574087001533 GAF domain; Region: GAF_2; pfam13185 574087001534 PAS domain S-box; Region: sensory_box; TIGR00229 574087001535 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087001536 putative active site [active] 574087001537 heme pocket [chemical binding]; other site 574087001538 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 574087001539 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 574087001540 Walker A motif; other site 574087001541 ATP binding site [chemical binding]; other site 574087001542 Walker B motif; other site 574087001543 arginine finger; other site 574087001544 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 574087001545 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 574087001546 BCCT family transporter; Region: BCCT; pfam02028 574087001547 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 574087001548 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 574087001549 B12 binding site [chemical binding]; other site 574087001550 cobalt ligand [ion binding]; other site 574087001551 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 574087001552 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 574087001553 substrate binding pocket [chemical binding]; other site 574087001554 dimer interface [polypeptide binding]; other site 574087001555 inhibitor binding site; inhibition site 574087001556 Cache domain; Region: Cache_1; pfam02743 574087001557 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 574087001558 dimerization interface [polypeptide binding]; other site 574087001559 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 574087001560 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087001561 dimer interface [polypeptide binding]; other site 574087001562 putative CheW interface [polypeptide binding]; other site 574087001563 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 574087001564 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 574087001565 ATP binding site [chemical binding]; other site 574087001566 substrate binding site [chemical binding]; other site 574087001567 FOG: CBS domain [General function prediction only]; Region: COG0517 574087001568 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 574087001569 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 574087001570 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 574087001571 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 574087001572 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 574087001573 transmembrane helices; other site 574087001574 butyrate kinase; Provisional; Region: PRK03011 574087001575 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 574087001576 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087001577 Ferredoxin [Energy production and conversion]; Region: COG1146 574087001578 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 574087001579 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 574087001580 dimer interface [polypeptide binding]; other site 574087001581 PYR/PP interface [polypeptide binding]; other site 574087001582 TPP binding site [chemical binding]; other site 574087001583 substrate binding site [chemical binding]; other site 574087001584 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 574087001585 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 574087001586 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 574087001587 TPP-binding site [chemical binding]; other site 574087001588 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 574087001589 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 574087001590 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 574087001591 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 574087001592 catalytic loop [active] 574087001593 iron binding site [ion binding]; other site 574087001594 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 574087001595 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 574087001596 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 574087001597 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 574087001598 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 574087001599 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 574087001600 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 574087001601 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 574087001602 phosphate binding site [ion binding]; other site 574087001603 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087001604 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 574087001605 Predicted amidohydrolase [General function prediction only]; Region: COG0388 574087001606 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 574087001607 putative active site [active] 574087001608 catalytic triad [active] 574087001609 putative dimer interface [polypeptide binding]; other site 574087001610 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 574087001611 benzoate transporter; Region: benE; TIGR00843 574087001612 Benzoate membrane transport protein; Region: BenE; pfam03594 574087001613 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087001614 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 574087001615 Walker A/P-loop; other site 574087001616 ATP binding site [chemical binding]; other site 574087001617 Q-loop/lid; other site 574087001618 ABC transporter signature motif; other site 574087001619 Walker B; other site 574087001620 D-loop; other site 574087001621 H-loop/switch region; other site 574087001622 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 574087001623 putative MPT binding site; other site 574087001624 XdhC Rossmann domain; Region: XdhC_C; pfam13478 574087001625 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 574087001626 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 574087001627 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 574087001628 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 574087001629 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 574087001630 putative PBP binding loops; other site 574087001631 ABC-ATPase subunit interface; other site 574087001632 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 574087001633 Uncharacterized conserved protein [Function unknown]; Region: COG2014 574087001634 Domain of unknown function (DUF364); Region: DUF364; pfam04016 574087001635 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 574087001636 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 574087001637 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 574087001638 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 574087001639 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 574087001640 Ligand binding site; other site 574087001641 metal-binding site 574087001642 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 574087001643 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 574087001644 B12 binding site [chemical binding]; other site 574087001645 heterodimer interface [polypeptide binding]; other site 574087001646 cobalt ligand [ion binding]; other site 574087001647 MutL protein; Region: MutL; pfam13941 574087001648 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 574087001649 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 574087001650 substrate binding site [chemical binding]; other site 574087001651 B12 cofactor binding site [chemical binding]; other site 574087001652 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 574087001653 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 574087001654 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 574087001655 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 574087001656 dimer interface [polypeptide binding]; other site 574087001657 active site 574087001658 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 574087001659 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 574087001660 PAS fold; Region: PAS; pfam00989 574087001661 PAS domain; Region: PAS; smart00091 574087001662 putative active site [active] 574087001663 heme pocket [chemical binding]; other site 574087001664 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 574087001665 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 574087001666 Walker A motif; other site 574087001667 ATP binding site [chemical binding]; other site 574087001668 Walker B motif; other site 574087001669 arginine finger; other site 574087001670 fumarate hydratase; Provisional; Region: PRK06246 574087001671 Fumarase C-terminus; Region: Fumerase_C; cl00795 574087001672 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 574087001673 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 574087001674 putative active site [active] 574087001675 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 574087001676 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 574087001677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087001678 Probable transposase; Region: OrfB_IS605; pfam01385 574087001679 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087001680 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 574087001681 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 574087001682 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 574087001683 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 574087001684 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 574087001685 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 574087001686 ribonuclease PH; Reviewed; Region: rph; PRK00173 574087001687 Ribonuclease PH; Region: RNase_PH_bact; cd11362 574087001688 hexamer interface [polypeptide binding]; other site 574087001689 active site 574087001690 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 574087001691 active site 574087001692 dimerization interface [polypeptide binding]; other site 574087001693 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 574087001694 active site 574087001695 metal binding site [ion binding]; metal-binding site 574087001696 homotetramer interface [polypeptide binding]; other site 574087001697 trigger factor; Provisional; Region: tig; PRK01490 574087001698 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 574087001699 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 574087001700 Clp protease; Region: CLP_protease; pfam00574 574087001701 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 574087001702 oligomer interface [polypeptide binding]; other site 574087001703 active site residues [active] 574087001704 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 574087001705 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 574087001706 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 574087001707 Walker A motif; other site 574087001708 ATP binding site [chemical binding]; other site 574087001709 Walker B motif; other site 574087001710 arginine finger; other site 574087001711 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 574087001712 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 574087001713 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 574087001714 Walker A motif; other site 574087001715 ATP binding site [chemical binding]; other site 574087001716 Walker B motif; other site 574087001717 arginine finger; other site 574087001718 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 574087001719 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 574087001720 Found in ATP-dependent protease La (LON); Region: LON; smart00464 574087001721 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 574087001722 Walker A motif; other site 574087001723 ATP binding site [chemical binding]; other site 574087001724 Walker B motif; other site 574087001725 arginine finger; other site 574087001726 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 574087001727 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 574087001728 G1 box; other site 574087001729 GTP/Mg2+ binding site [chemical binding]; other site 574087001730 Switch I region; other site 574087001731 G2 box; other site 574087001732 G3 box; other site 574087001733 Switch II region; other site 574087001734 G4 box; other site 574087001735 G5 box; other site 574087001736 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 574087001737 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 574087001738 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 574087001739 UbiA prenyltransferase family; Region: UbiA; pfam01040 574087001740 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 574087001741 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 574087001742 FeS/SAM binding site; other site 574087001743 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 574087001744 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 574087001745 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 574087001746 FeS/SAM binding site; other site 574087001747 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 574087001748 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 574087001749 active site 574087001750 aromatic acid decarboxylase; Validated; Region: PRK05920 574087001751 Flavoprotein; Region: Flavoprotein; pfam02441 574087001752 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 574087001753 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574087001754 active site 574087001755 HIGH motif; other site 574087001756 nucleotide binding site [chemical binding]; other site 574087001757 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 574087001758 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 574087001759 active site 574087001760 KMSKS motif; other site 574087001761 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 574087001762 tRNA binding surface [nucleotide binding]; other site 574087001763 anticodon binding site; other site 574087001764 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 574087001765 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 574087001766 PAS domain S-box; Region: sensory_box; TIGR00229 574087001767 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 574087001768 Walker A motif; other site 574087001769 ATP binding site [chemical binding]; other site 574087001770 Walker B motif; other site 574087001771 arginine finger; other site 574087001772 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 574087001773 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 574087001774 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 574087001775 putative metal binding site [ion binding]; other site 574087001776 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 574087001777 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 574087001778 active site 574087001779 homodimer interface [polypeptide binding]; other site 574087001780 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 574087001781 Malic enzyme, N-terminal domain; Region: malic; pfam00390 574087001782 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 574087001783 putative NAD(P) binding site [chemical binding]; other site 574087001784 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 574087001785 Aspartase; Region: Aspartase; cd01357 574087001786 active sites [active] 574087001787 tetramer interface [polypeptide binding]; other site 574087001788 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 574087001789 aspartate racemase; Region: asp_race; TIGR00035 574087001790 fumarate hydratase; Provisional; Region: PRK06246 574087001791 Fumarase C-terminus; Region: Fumerase_C; cl00795 574087001792 citrate synthase; Provisional; Region: PRK14032 574087001793 Citrate synthase; Region: Citrate_synt; pfam00285 574087001794 oxalacetate binding site [chemical binding]; other site 574087001795 citrylCoA binding site [chemical binding]; other site 574087001796 coenzyme A binding site [chemical binding]; other site 574087001797 catalytic triad [active] 574087001798 Methyltransferase domain; Region: Methyltransf_26; pfam13659 574087001799 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 574087001800 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 574087001801 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 574087001802 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574087001803 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574087001804 Sporulation related domain; Region: SPOR; pfam05036 574087001805 DRTGG domain; Region: DRTGG; pfam07085 574087001806 FOG: CBS domain [General function prediction only]; Region: COG0517 574087001807 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 574087001808 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 574087001809 Histidine kinase-like ATPases; This family includes several ATP-binding 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 574087001810 ATP binding site [chemical binding]; other site 574087001811 Mg2+ binding site [ion binding]; other site 574087001812 G-X-G motif; other site 574087001813 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 574087001814 dimer interface [polypeptide binding]; other site 574087001815 [2Fe-2S] cluster binding site [ion binding]; other site 574087001816 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 574087001817 SLBB domain; Region: SLBB; pfam10531 574087001818 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 574087001819 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 574087001820 FMN-binding domain; Region: FMN_bind; cl01081 574087001821 electron transport complex RsxE subunit; Provisional; Region: PRK12405 574087001822 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 574087001823 ferredoxin; Validated; Region: PRK07118 574087001824 Putative Fe-S cluster; Region: FeS; cl17515 574087001825 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087001826 4Fe-4S binding domain; Region: Fer4; pfam00037 574087001827 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 574087001828 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 574087001829 S-adenosylmethionine binding site [chemical binding]; other site 574087001830 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 574087001831 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 574087001832 substrate binding pocket [chemical binding]; other site 574087001833 chain length determination region; other site 574087001834 substrate-Mg2+ binding site; other site 574087001835 catalytic residues [active] 574087001836 aspartate-rich region 1; other site 574087001837 active site lid residues [active] 574087001838 aspartate-rich region 2; other site 574087001839 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 574087001840 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 574087001841 tRNA; other site 574087001842 putative tRNA binding site [nucleotide binding]; other site 574087001843 putative NADP binding site [chemical binding]; other site 574087001844 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 574087001845 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 574087001846 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 574087001847 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 574087001848 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 574087001849 domain interfaces; other site 574087001850 active site 574087001851 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 574087001852 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 574087001853 active site 574087001854 SAM binding site [chemical binding]; other site 574087001855 homodimer interface [polypeptide binding]; other site 574087001856 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 574087001857 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 574087001858 active site 574087001859 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 574087001860 dimer interface [polypeptide binding]; other site 574087001861 active site 574087001862 Schiff base residues; other site 574087001863 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 574087001864 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 574087001865 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 574087001866 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 574087001867 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 574087001868 inhibitor-cofactor binding pocket; inhibition site 574087001869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087001870 catalytic residue [active] 574087001871 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 574087001872 ApbE family; Region: ApbE; pfam02424 574087001873 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 574087001874 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 574087001875 GTP binding site; other site 574087001876 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 574087001877 Walker A motif; other site 574087001878 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 574087001879 Maf-like protein; Reviewed; Region: PRK00078 574087001880 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 574087001881 active site 574087001882 dimer interface [polypeptide binding]; other site 574087001883 hypothetical protein; Reviewed; Region: PRK00024 574087001884 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 574087001885 MPN+ (JAMM) motif; other site 574087001886 Zinc-binding site [ion binding]; other site 574087001887 rod shape-determining protein MreB; Provisional; Region: PRK13927 574087001888 MreB and similar proteins; Region: MreB_like; cd10225 574087001889 nucleotide binding site [chemical binding]; other site 574087001890 Mg binding site [ion binding]; other site 574087001891 putative protofilament interaction site [polypeptide binding]; other site 574087001892 RodZ interaction site [polypeptide binding]; other site 574087001893 rod shape-determining protein MreC; Provisional; Region: PRK13922 574087001894 rod shape-determining protein MreC; Region: MreC; pfam04085 574087001895 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 574087001896 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 574087001897 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 574087001898 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 574087001899 septum formation inhibitor; Reviewed; Region: minC; PRK00513 574087001900 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 574087001901 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 574087001902 Switch I; other site 574087001903 Switch II; other site 574087001904 Septum formation topological specificity factor MinE; Region: MinE; cl00538 574087001905 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 574087001906 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 574087001907 Peptidase family M50; Region: Peptidase_M50; pfam02163 574087001908 active site 574087001909 putative substrate binding region [chemical binding]; other site 574087001910 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 574087001911 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 574087001912 B12 binding site [chemical binding]; other site 574087001913 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 574087001914 FeS/SAM binding site; other site 574087001915 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 574087001916 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 574087001917 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 574087001918 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 574087001919 homodimer interface [polypeptide binding]; other site 574087001920 oligonucleotide binding site [chemical binding]; other site 574087001921 TRAM domain; Region: TRAM; cl01282 574087001922 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 574087001923 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 574087001924 Protein of unknown function (DUF464); Region: DUF464; pfam04327 574087001925 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 574087001926 GTPase CgtA; Reviewed; Region: obgE; PRK12297 574087001927 GTP1/OBG; Region: GTP1_OBG; pfam01018 574087001928 Obg GTPase; Region: Obg; cd01898 574087001929 G1 box; other site 574087001930 GTP/Mg2+ binding site [chemical binding]; other site 574087001931 Switch I region; other site 574087001932 G2 box; other site 574087001933 G3 box; other site 574087001934 Switch II region; other site 574087001935 G4 box; other site 574087001936 G5 box; other site 574087001937 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 574087001938 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 574087001939 gamma-glutamyl kinase; Provisional; Region: PRK05429 574087001940 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 574087001941 nucleotide binding site [chemical binding]; other site 574087001942 homotetrameric interface [polypeptide binding]; other site 574087001943 putative phosphate binding site [ion binding]; other site 574087001944 putative allosteric binding site; other site 574087001945 PUA domain; Region: PUA; pfam01472 574087001946 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 574087001947 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 574087001948 putative catalytic cysteine [active] 574087001949 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 574087001950 FAD binding site [chemical binding]; other site 574087001951 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 574087001952 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 574087001953 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 574087001954 active site 574087001955 (T/H)XGH motif; other site 574087001956 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087001957 Zn2+ binding site [ion binding]; other site 574087001958 Mg2+ binding site [ion binding]; other site 574087001959 Transcriptional regulator [Transcription]; Region: LytR; COG1316 574087001960 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 574087001961 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 574087001962 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 574087001963 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 574087001964 HIGH motif; other site 574087001965 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 574087001966 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 574087001967 active site 574087001968 KMSKS motif; other site 574087001969 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 574087001970 tRNA binding surface [nucleotide binding]; other site 574087001971 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 574087001972 SLBB domain; Region: SLBB; pfam10531 574087001973 comEA protein; Region: comE; TIGR01259 574087001974 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 574087001975 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 574087001976 Competence protein; Region: Competence; pfam03772 574087001977 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 574087001978 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 574087001979 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 574087001980 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 574087001981 active site 574087001982 DNA binding site [nucleotide binding] 574087001983 Int/Topo IB signature motif; other site 574087001984 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087001985 ATP binding site [chemical binding]; other site 574087001986 Mg2+ binding site [ion binding]; other site 574087001987 G-X-G motif; other site 574087001988 Accessory gene regulator B; Region: AgrB; pfam04647 574087001989 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 574087001990 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 574087001991 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 574087001992 DNA polymerase III, delta subunit; Region: holA; TIGR01128 574087001993 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 574087001994 Membrane protein of unknown function; Region: DUF360; pfam04020 574087001995 germination protease; Provisional; Region: PRK12362 574087001996 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 574087001997 stage II sporulation protein P; Region: spore_II_P; TIGR02867 574087001998 GTP-binding protein LepA; Provisional; Region: PRK05433 574087001999 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 574087002000 G1 box; other site 574087002001 putative GEF interaction site [polypeptide binding]; other site 574087002002 GTP/Mg2+ binding site [chemical binding]; other site 574087002003 Switch I region; other site 574087002004 G2 box; other site 574087002005 G3 box; other site 574087002006 Switch II region; other site 574087002007 G4 box; other site 574087002008 G5 box; other site 574087002009 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 574087002010 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 574087002011 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 574087002012 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 574087002013 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 574087002014 FeS/SAM binding site; other site 574087002015 HemN C-terminal domain; Region: HemN_C; pfam06969 574087002016 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 574087002017 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 574087002018 GrpE; Region: GrpE; pfam01025 574087002019 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 574087002020 dimer interface [polypeptide binding]; other site 574087002021 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 574087002022 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 574087002023 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 574087002024 nucleotide binding site [chemical binding]; other site 574087002025 NEF interaction site [polypeptide binding]; other site 574087002026 SBD interface [polypeptide binding]; other site 574087002027 chaperone protein DnaJ; Provisional; Region: PRK10767 574087002028 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 574087002029 HSP70 interaction site [polypeptide binding]; other site 574087002030 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 574087002031 substrate binding site [polypeptide binding]; other site 574087002032 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 574087002033 Zn binding sites [ion binding]; other site 574087002034 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 574087002035 dimer interface [polypeptide binding]; other site 574087002036 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 574087002037 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 574087002038 S-adenosylmethionine binding site [chemical binding]; other site 574087002039 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 574087002040 RNA methyltransferase, RsmE family; Region: TIGR00046 574087002041 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 574087002042 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 574087002043 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 574087002044 FeS/SAM binding site; other site 574087002045 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 574087002046 nucleotide binding site/active site [active] 574087002047 HIT family signature motif; other site 574087002048 catalytic residue [active] 574087002049 Yqey-like protein; Region: YqeY; pfam09424 574087002050 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 574087002051 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 574087002052 dimer interface [polypeptide binding]; other site 574087002053 active site residues [active] 574087002054 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 574087002055 hypothetical protein; Provisional; Region: PRK13665 574087002056 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 574087002057 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 574087002058 Sulfate transporter family; Region: Sulfate_transp; pfam00916 574087002059 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 574087002060 YabP family; Region: YabP; cl06766 574087002061 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 574087002062 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 574087002063 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 574087002064 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 574087002065 PhoH-like protein; Region: PhoH; pfam02562 574087002066 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 574087002067 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 574087002068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087002069 Zn2+ binding site [ion binding]; other site 574087002070 Mg2+ binding site [ion binding]; other site 574087002071 metal-binding heat shock protein; Provisional; Region: PRK00016 574087002072 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 574087002073 Domain of unknown function DUF21; Region: DUF21; pfam01595 574087002074 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 574087002075 Transporter associated domain; Region: CorC_HlyC; smart01091 574087002076 Uncharacterized conserved protein [Function unknown]; Region: COG2928 574087002077 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 574087002078 active site 574087002079 catalytic motif [active] 574087002080 Zn binding site [ion binding]; other site 574087002081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 574087002082 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 574087002083 Coenzyme A binding pocket [chemical binding]; other site 574087002084 GTPase Era; Reviewed; Region: era; PRK00089 574087002085 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 574087002086 G1 box; other site 574087002087 GTP/Mg2+ binding site [chemical binding]; other site 574087002088 Switch I region; other site 574087002089 G2 box; other site 574087002090 Switch II region; other site 574087002091 G3 box; other site 574087002092 G4 box; other site 574087002093 G5 box; other site 574087002094 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 574087002095 MgtE intracellular N domain; Region: MgtE_N; smart00924 574087002096 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 574087002097 Divalent cation transporter; Region: MgtE; pfam01769 574087002098 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 574087002099 intersubunit interface [polypeptide binding]; other site 574087002100 active site 574087002101 catalytic residue [active] 574087002102 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 574087002103 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 574087002104 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574087002105 catalytic residue [active] 574087002106 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 574087002107 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 574087002108 dimer interface [polypeptide binding]; other site 574087002109 conserved gate region; other site 574087002110 putative PBP binding loops; other site 574087002111 ABC-ATPase subunit interface; other site 574087002112 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 574087002113 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 574087002114 dimer interface [polypeptide binding]; other site 574087002115 conserved gate region; other site 574087002116 putative PBP binding loops; other site 574087002117 ABC-ATPase subunit interface; other site 574087002118 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 574087002119 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 574087002120 Walker A/P-loop; other site 574087002121 ATP binding site [chemical binding]; other site 574087002122 Q-loop/lid; other site 574087002123 ABC transporter signature motif; other site 574087002124 Walker B; other site 574087002125 D-loop; other site 574087002126 H-loop/switch region; other site 574087002127 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 574087002128 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 574087002129 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 574087002130 Walker A/P-loop; other site 574087002131 ATP binding site [chemical binding]; other site 574087002132 Q-loop/lid; other site 574087002133 ABC transporter signature motif; other site 574087002134 Walker B; other site 574087002135 D-loop; other site 574087002136 H-loop/switch region; other site 574087002137 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 574087002138 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 574087002139 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 574087002140 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 574087002141 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 574087002142 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 574087002143 putative [Fe4-S4] binding site [ion binding]; other site 574087002144 putative molybdopterin cofactor binding site [chemical binding]; other site 574087002145 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 574087002146 molybdopterin cofactor binding site; other site 574087002147 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 574087002148 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 574087002149 PYR/PP interface [polypeptide binding]; other site 574087002150 dimer interface [polypeptide binding]; other site 574087002151 TPP binding site [chemical binding]; other site 574087002152 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 574087002153 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 574087002154 TPP-binding site [chemical binding]; other site 574087002155 dimer interface [polypeptide binding]; other site 574087002156 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 574087002157 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 574087002158 putative valine binding site [chemical binding]; other site 574087002159 dimer interface [polypeptide binding]; other site 574087002160 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 574087002161 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 574087002162 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 574087002163 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 574087002164 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 574087002165 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 574087002166 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 574087002167 E3 interaction surface; other site 574087002168 lipoyl attachment site [posttranslational modification]; other site 574087002169 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 574087002170 E3 interaction surface; other site 574087002171 lipoyl attachment site [posttranslational modification]; other site 574087002172 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 574087002173 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 574087002174 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574087002175 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 574087002176 OsmC-like protein; Region: OsmC; cl00767 574087002177 OsmC-like protein; Region: OsmC; pfam02566 574087002178 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 574087002179 PLD-like domain; Region: PLDc_2; pfam13091 574087002180 putative active site [active] 574087002181 catalytic site [active] 574087002182 DEAD-like helicases superfamily; Region: DEXDc; smart00487 574087002183 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 574087002184 ATP binding site [chemical binding]; other site 574087002185 putative Mg++ binding site [ion binding]; other site 574087002186 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 574087002187 nucleotide binding region [chemical binding]; other site 574087002188 ATP-binding site [chemical binding]; other site 574087002189 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 574087002190 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 574087002191 Photosystem I reaction centre subunit VI; Region: PSI_PsaH; cl03956 574087002192 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 574087002193 putative active site [active] 574087002194 catalytic site [active] 574087002195 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 574087002196 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 574087002197 ATP binding site [chemical binding]; other site 574087002198 putative Mg++ binding site [ion binding]; other site 574087002199 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 574087002200 nucleotide binding region [chemical binding]; other site 574087002201 ATP-binding site [chemical binding]; other site 574087002202 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 574087002203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087002204 Walker A/P-loop; other site 574087002205 ATP binding site [chemical binding]; other site 574087002206 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 574087002207 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 574087002208 Radical SAM superfamily; Region: Radical_SAM; pfam04055 574087002209 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 574087002210 ATP binding site [chemical binding]; other site 574087002211 Mg2+ binding site [ion binding]; other site 574087002212 G-X-G motif; other site 574087002213 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 574087002214 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 574087002215 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 574087002216 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 574087002217 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 574087002218 non-specific DNA binding site [nucleotide binding]; other site 574087002219 salt bridge; other site 574087002220 sequence-specific DNA binding site [nucleotide binding]; other site 574087002221 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087002222 Probable transposase; Region: OrfB_IS605; pfam01385 574087002223 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087002224 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087002225 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 574087002226 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087002227 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 574087002228 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 574087002229 nickel binding site [ion binding]; other site 574087002230 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 574087002231 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 574087002232 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 574087002233 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 574087002234 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 574087002235 Acylphosphatase; Region: Acylphosphatase; pfam00708 574087002236 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 574087002237 HypF finger; Region: zf-HYPF; pfam07503 574087002238 HypF finger; Region: zf-HYPF; pfam07503 574087002239 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 574087002240 HupF/HypC family; Region: HupF_HypC; pfam01455 574087002241 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 574087002242 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 574087002243 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 574087002244 dimerization interface [polypeptide binding]; other site 574087002245 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 574087002246 ATP binding site [chemical binding]; other site 574087002247 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 574087002248 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 574087002249 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 574087002250 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 574087002251 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 574087002252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087002253 Walker A/P-loop; other site 574087002254 ATP binding site [chemical binding]; other site 574087002255 Q-loop/lid; other site 574087002256 ABC transporter signature motif; other site 574087002257 Walker B; other site 574087002258 D-loop; other site 574087002259 H-loop/switch region; other site 574087002260 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 574087002261 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 574087002262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087002263 Walker A/P-loop; other site 574087002264 ATP binding site [chemical binding]; other site 574087002265 Q-loop/lid; other site 574087002266 ABC transporter signature motif; other site 574087002267 Walker B; other site 574087002268 D-loop; other site 574087002269 H-loop/switch region; other site 574087002270 Predicted permease; Region: DUF318; cl17795 574087002271 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 574087002272 dimerization interface [polypeptide binding]; other site 574087002273 putative DNA binding site [nucleotide binding]; other site 574087002274 putative Zn2+ binding site [ion binding]; other site 574087002275 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 574087002276 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 574087002277 substrate binding site [chemical binding]; other site 574087002278 active site 574087002279 cosubstrate binding site; other site 574087002280 catalytic site [active] 574087002281 OPT oligopeptide transporter protein; Region: OPT; cl14607 574087002282 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 574087002283 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 574087002284 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 574087002285 active site 574087002286 nucleophile elbow; other site 574087002287 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 574087002288 Recombination protein O N terminal; Region: RecO_N; pfam11967 574087002289 Recombination protein O C terminal; Region: RecO_C; pfam02565 574087002290 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 574087002291 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 574087002292 dimer interface [polypeptide binding]; other site 574087002293 motif 1; other site 574087002294 active site 574087002295 motif 2; other site 574087002296 motif 3; other site 574087002297 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 574087002298 DALR anticodon binding domain; Region: DALR_1; pfam05746 574087002299 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 574087002300 HTH domain; Region: HTH_11; pfam08279 574087002301 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 574087002302 FOG: CBS domain [General function prediction only]; Region: COG0517 574087002303 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 574087002304 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 574087002305 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 574087002306 putative active site [active] 574087002307 pyruvate phosphate dikinase; Provisional; Region: PRK09279 574087002308 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 574087002309 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 574087002310 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 574087002311 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 574087002312 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 574087002313 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 574087002314 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087002315 Zn2+ binding site [ion binding]; other site 574087002316 Mg2+ binding site [ion binding]; other site 574087002317 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 574087002318 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 574087002319 DNA primase; Validated; Region: dnaG; PRK05667 574087002320 CHC2 zinc finger; Region: zf-CHC2; cl17510 574087002321 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 574087002322 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 574087002323 active site 574087002324 metal binding site [ion binding]; metal-binding site 574087002325 interdomain interaction site; other site 574087002326 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 574087002327 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 574087002328 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 574087002329 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087002330 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 574087002331 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 574087002332 DNA binding residues [nucleotide binding] 574087002333 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 574087002334 Family of unknown function (DUF633); Region: DUF633; pfam04816 574087002335 Uncharacterized conserved protein [Function unknown]; Region: COG0327 574087002336 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 574087002337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 574087002338 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 574087002339 Uncharacterized conserved protein [Function unknown]; Region: COG0327 574087002340 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 574087002341 Putative zinc ribbon domain; Region: DUF164; pfam02591 574087002342 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 574087002343 RNA/DNA hybrid binding site [nucleotide binding]; other site 574087002344 active site 574087002345 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 574087002346 Prephenate dehydratase; Region: PDT; pfam00800 574087002347 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 574087002348 putative L-Phe binding site [chemical binding]; other site 574087002349 hypothetical protein; Validated; Region: PRK00110 574087002350 BofC C-terminal domain; Region: BofC_C; pfam08955 574087002351 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 574087002352 RuvA N terminal domain; Region: RuvA_N; pfam01330 574087002353 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 574087002354 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 574087002355 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 574087002356 Walker A motif; other site 574087002357 ATP binding site [chemical binding]; other site 574087002358 Walker B motif; other site 574087002359 arginine finger; other site 574087002360 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 574087002361 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 574087002362 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 574087002363 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 574087002364 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 574087002365 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 574087002366 Preprotein translocase subunit; Region: YajC; pfam02699 574087002367 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 574087002368 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 574087002369 Catalytic site [active] 574087002370 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087002371 Zn2+ binding site [ion binding]; other site 574087002372 Mg2+ binding site [ion binding]; other site 574087002373 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 574087002374 protein-export membrane protein SecD; Region: secD; TIGR01129 574087002375 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 574087002376 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 574087002377 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 574087002378 Protein export membrane protein; Region: SecD_SecF; pfam02355 574087002379 Uncharacterized conserved protein [Function unknown]; Region: COG3937 574087002380 Protein of unknown function (DUF456); Region: DUF456; pfam04306 574087002381 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 574087002382 ABC1 family; Region: ABC1; pfam03109 574087002383 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 574087002384 active site 574087002385 ATP binding site [chemical binding]; other site 574087002386 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 574087002387 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 574087002388 DHH family; Region: DHH; pfam01368 574087002389 DHHA1 domain; Region: DHHA1; pfam02272 574087002390 HIRAN domain; Region: HIRAN; pfam08797 574087002391 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 574087002392 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 574087002393 ATP binding site [chemical binding]; other site 574087002394 putative Mg++ binding site [ion binding]; other site 574087002395 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 574087002396 nucleotide binding region [chemical binding]; other site 574087002397 ATP-binding site [chemical binding]; other site 574087002398 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087002399 active site 574087002400 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 574087002401 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087002402 Zn2+ binding site [ion binding]; other site 574087002403 Mg2+ binding site [ion binding]; other site 574087002404 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 574087002405 synthetase active site [active] 574087002406 NTP binding site [chemical binding]; other site 574087002407 metal binding site [ion binding]; metal-binding site 574087002408 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 574087002409 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 574087002410 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 574087002411 putative active site [active] 574087002412 dimerization interface [polypeptide binding]; other site 574087002413 putative tRNAtyr binding site [nucleotide binding]; other site 574087002414 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 574087002415 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 574087002416 SurA N-terminal domain; Region: SurA_N_3; cl07813 574087002417 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 574087002418 TPR motif; other site 574087002419 binding surface 574087002420 TPR repeat; Region: TPR_11; pfam13414 574087002421 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 574087002422 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 574087002423 dimer interface [polypeptide binding]; other site 574087002424 motif 1; other site 574087002425 active site 574087002426 motif 2; other site 574087002427 motif 3; other site 574087002428 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 574087002429 anticodon binding site; other site 574087002430 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 574087002431 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 574087002432 dimer interface [polypeptide binding]; other site 574087002433 anticodon binding site; other site 574087002434 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 574087002435 homodimer interface [polypeptide binding]; other site 574087002436 motif 1; other site 574087002437 active site 574087002438 motif 2; other site 574087002439 GAD domain; Region: GAD; pfam02938 574087002440 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 574087002441 motif 3; other site 574087002442 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 574087002443 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 574087002444 recombination factor protein RarA; Reviewed; Region: PRK13342 574087002445 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 574087002446 Walker A motif; other site 574087002447 ATP binding site [chemical binding]; other site 574087002448 Walker B motif; other site 574087002449 arginine finger; other site 574087002450 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 574087002451 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 574087002452 Uncharacterized conserved protein [Function unknown]; Region: COG1739 574087002453 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 574087002454 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 574087002455 Predicted membrane protein [Function unknown]; Region: COG2364 574087002456 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 574087002457 Transcriptional regulator; Region: Rrf2; cl17282 574087002458 Rrf2 family protein; Region: rrf2_super; TIGR00738 574087002459 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 574087002460 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 574087002461 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574087002462 catalytic residue [active] 574087002463 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 574087002464 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 574087002465 trimerization site [polypeptide binding]; other site 574087002466 active site 574087002467 tRNA-specific 2-thiouridylase MnmA; Reviewed; Region: mnmA; PRK00143 574087002468 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 574087002469 binding surface 574087002470 Tetratricopeptide repeat; Region: TPR_16; pfam13432 574087002471 TPR motif; other site 574087002472 TPR repeat; Region: TPR_11; pfam13414 574087002473 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 574087002474 binding surface 574087002475 TPR motif; other site 574087002476 TPR repeat; Region: TPR_11; pfam13414 574087002477 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 574087002478 SIR2-like domain; Region: SIR2_2; pfam13289 574087002479 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 574087002480 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 574087002481 MraZ protein; Region: MraZ; pfam02381 574087002482 MraW methylase family; Region: Methyltransf_5; pfam01795 574087002483 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 574087002484 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 574087002485 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 574087002486 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 574087002487 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 574087002488 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 574087002489 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 574087002490 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 574087002491 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574087002492 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574087002493 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 574087002494 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 574087002495 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574087002496 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574087002497 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 574087002498 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 574087002499 Mg++ binding site [ion binding]; other site 574087002500 putative catalytic motif [active] 574087002501 putative substrate binding site [chemical binding]; other site 574087002502 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 574087002503 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574087002504 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574087002505 cell division protein FtsW; Region: ftsW; TIGR02614 574087002506 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 574087002507 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 574087002508 homodimer interface [polypeptide binding]; other site 574087002509 active site 574087002510 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 574087002511 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 574087002512 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574087002513 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574087002514 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 574087002515 FAD binding domain; Region: FAD_binding_4; pfam01565 574087002516 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 574087002517 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 574087002518 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 574087002519 hinge; other site 574087002520 active site 574087002521 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 574087002522 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 574087002523 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 574087002524 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 574087002525 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 574087002526 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 574087002527 Cell division protein FtsA; Region: FtsA; smart00842 574087002528 Cell division protein FtsA; Region: FtsA; pfam14450 574087002529 cell division protein FtsZ; Validated; Region: PRK09330 574087002530 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 574087002531 nucleotide binding site [chemical binding]; other site 574087002532 SulA interaction site; other site 574087002533 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 574087002534 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 574087002535 sporulation sigma factor SigE; Reviewed; Region: PRK08301 574087002536 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087002537 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 574087002538 DNA binding residues [nucleotide binding] 574087002539 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 574087002540 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 574087002541 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 574087002542 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 574087002543 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 574087002544 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 574087002545 putative dimer interface [polypeptide binding]; other site 574087002546 active site pocket [active] 574087002547 putative cataytic base [active] 574087002548 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 574087002549 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 574087002550 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 574087002551 Metal-binding active site; metal-binding site 574087002552 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 574087002553 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 574087002554 DNA binding residues [nucleotide binding] 574087002555 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 574087002556 catalytic residues [active] 574087002557 catalytic nucleophile [active] 574087002558 Probable transposase; Region: OrfB_IS605; pfam01385 574087002559 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087002560 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087002561 cobalt transport protein CbiM; Validated; Region: PRK08319 574087002562 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 574087002563 cobalt transport protein CbiN; Provisional; Region: PRK02898 574087002564 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 574087002565 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 574087002566 cobalamin binding residues [chemical binding]; other site 574087002567 putative BtuC binding residues; other site 574087002568 dimer interface [polypeptide binding]; other site 574087002569 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 574087002570 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 574087002571 ABC-ATPase subunit interface; other site 574087002572 dimer interface [polypeptide binding]; other site 574087002573 putative PBP binding regions; other site 574087002574 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 574087002575 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 574087002576 Walker A/P-loop; other site 574087002577 ATP binding site [chemical binding]; other site 574087002578 Q-loop/lid; other site 574087002579 ABC transporter signature motif; other site 574087002580 Walker B; other site 574087002581 D-loop; other site 574087002582 H-loop/switch region; other site 574087002583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 574087002584 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 574087002585 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 574087002586 N-terminal plug; other site 574087002587 ligand-binding site [chemical binding]; other site 574087002588 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 574087002589 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 574087002590 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 574087002591 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 574087002592 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 574087002593 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 574087002594 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 574087002595 putative active site [active] 574087002596 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 574087002597 cobalt transport protein CbiM; Validated; Region: PRK06265 574087002598 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 574087002599 CopC domain; Region: CopC; cl01012 574087002600 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 574087002601 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 574087002602 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 574087002603 Walker A/P-loop; other site 574087002604 ATP binding site [chemical binding]; other site 574087002605 Q-loop/lid; other site 574087002606 ABC transporter signature motif; other site 574087002607 Walker B; other site 574087002608 D-loop; other site 574087002609 H-loop/switch region; other site 574087002610 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 574087002611 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 574087002612 putative metal binding site [ion binding]; other site 574087002613 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 574087002614 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 574087002615 ABC-ATPase subunit interface; other site 574087002616 dimer interface [polypeptide binding]; other site 574087002617 putative PBP binding regions; other site 574087002618 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 574087002619 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 574087002620 Walker A/P-loop; other site 574087002621 ATP binding site [chemical binding]; other site 574087002622 Q-loop/lid; other site 574087002623 ABC transporter signature motif; other site 574087002624 Walker B; other site 574087002625 D-loop; other site 574087002626 H-loop/switch region; other site 574087002627 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 574087002628 homodimer interaction site [polypeptide binding]; other site 574087002629 cofactor binding site; other site 574087002630 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 574087002631 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 574087002632 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 574087002633 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 574087002634 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 574087002635 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 574087002636 putative metal binding site [ion binding]; other site 574087002637 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 574087002638 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 574087002639 putative metal binding site [ion binding]; other site 574087002640 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 574087002641 cobalt transport protein CbiM; Validated; Region: PRK06265 574087002642 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 574087002643 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 574087002644 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 574087002645 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 574087002646 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 574087002647 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 574087002648 Walker A/P-loop; other site 574087002649 ATP binding site [chemical binding]; other site 574087002650 Q-loop/lid; other site 574087002651 ABC transporter signature motif; other site 574087002652 Walker B; other site 574087002653 D-loop; other site 574087002654 H-loop/switch region; other site 574087002655 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 574087002656 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 574087002657 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 574087002658 Na binding site [ion binding]; other site 574087002659 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 574087002660 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 574087002661 metal binding site [ion binding]; metal-binding site 574087002662 dimer interface [polypeptide binding]; other site 574087002663 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 574087002664 Radical SAM superfamily; Region: Radical_SAM; pfam04055 574087002665 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 574087002666 FeS/SAM binding site; other site 574087002667 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 574087002668 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 574087002669 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 574087002670 dinuclear metal binding motif [ion binding]; other site 574087002671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087002672 Probable transposase; Region: OrfB_IS605; pfam01385 574087002673 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087002674 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 574087002675 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 574087002676 dimer interface [polypeptide binding]; other site 574087002677 active site 574087002678 metal binding site [ion binding]; metal-binding site 574087002679 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 574087002680 putative FMN binding site [chemical binding]; other site 574087002681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 574087002682 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 574087002683 Predicted transcriptional regulator [Transcription]; Region: COG2378 574087002684 HTH domain; Region: HTH_11; pfam08279 574087002685 WYL domain; Region: WYL; pfam13280 574087002686 CRISPR/Cas system-associated protein Cas10d; Region: Cas10d_I-D; cd09712 574087002687 CRISPR type I-D/CYANO-associated protein Csc3/Cas10d; Region: cas_Csc3; TIGR03174 574087002688 CRISPR/Cas system-associated protein Csc2; Region: Csc2_I-D; cl11869 574087002689 CRISPR/Cas system-associated protein Csc1; Region: Csc1_I-D; cd09711 574087002690 CRISPR type I-D/CYANO-associated protein Csc1; Region: cas_Csc1; TIGR03159 574087002691 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 574087002692 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 574087002693 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 574087002694 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 574087002695 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 574087002696 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 574087002697 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 574087002698 pentamer interface [polypeptide binding]; other site 574087002699 dodecaamer interface [polypeptide binding]; other site 574087002700 Predicted permeases [General function prediction only]; Region: COG0679 574087002701 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 574087002702 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 574087002703 homodimer interface [polypeptide binding]; other site 574087002704 maltodextrin glucosidase; Provisional; Region: PRK10785 574087002705 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 574087002706 active site 574087002707 homodimer interface [polypeptide binding]; other site 574087002708 catalytic site [active] 574087002709 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 574087002710 4-alpha-glucanotransferase; Provisional; Region: PRK14508 574087002711 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 574087002712 Precorrin-8X methylmutase; Region: CbiC; pfam02570 574087002713 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 574087002714 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 574087002715 active site 574087002716 putative homodimer interface [polypeptide binding]; other site 574087002717 SAM binding site [chemical binding]; other site 574087002718 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 574087002719 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 574087002720 S-adenosylmethionine binding site [chemical binding]; other site 574087002721 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 574087002722 active site 574087002723 SAM binding site [chemical binding]; other site 574087002724 homodimer interface [polypeptide binding]; other site 574087002725 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 574087002726 active site 574087002727 SAM binding site [chemical binding]; other site 574087002728 homodimer interface [polypeptide binding]; other site 574087002729 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 574087002730 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 574087002731 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 574087002732 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 574087002733 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 574087002734 active site 574087002735 SAM binding site [chemical binding]; other site 574087002736 homodimer interface [polypeptide binding]; other site 574087002737 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 574087002738 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 574087002739 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 574087002740 homotrimer interface [polypeptide binding]; other site 574087002741 Walker A motif; other site 574087002742 GTP binding site [chemical binding]; other site 574087002743 Walker B motif; other site 574087002744 cobyric acid synthase; Provisional; Region: PRK00784 574087002745 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 574087002746 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 574087002747 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 574087002748 catalytic triad [active] 574087002749 cobyric acid synthase; Provisional; Region: PRK00784 574087002750 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 574087002751 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 574087002752 catalytic triad [active] 574087002753 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 574087002754 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 574087002755 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 574087002756 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 574087002757 catalytic triad [active] 574087002758 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 574087002759 cobalamin synthase; Reviewed; Region: cobS; PRK00235 574087002760 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 574087002761 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 574087002762 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 574087002763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087002764 homodimer interface [polypeptide binding]; other site 574087002765 catalytic residue [active] 574087002766 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 574087002767 catalytic core [active] 574087002768 sporulation sigma factor SigG; Reviewed; Region: PRK08215 574087002769 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087002770 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 574087002771 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 574087002772 DNA binding residues [nucleotide binding] 574087002773 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 574087002774 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 574087002775 nickel responsive regulator; Provisional; Region: PRK04460 574087002776 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 574087002777 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 574087002778 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 574087002779 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 574087002780 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 574087002781 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087002782 active site 574087002783 phosphorylation site [posttranslational modification] 574087002784 intermolecular recognition site; other site 574087002785 dimerization interface [polypeptide binding]; other site 574087002786 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 574087002787 DNA binding site [nucleotide binding] 574087002788 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 574087002789 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 574087002790 dimerization interface [polypeptide binding]; other site 574087002791 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 574087002792 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087002793 putative active site [active] 574087002794 heme pocket [chemical binding]; other site 574087002795 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 574087002796 dimer interface [polypeptide binding]; other site 574087002797 phosphorylation site [posttranslational modification] 574087002798 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087002799 ATP binding site [chemical binding]; other site 574087002800 Mg2+ binding site [ion binding]; other site 574087002801 G-X-G motif; other site 574087002802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087002803 Probable transposase; Region: OrfB_IS605; pfam01385 574087002804 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087002805 PBP superfamily domain; Region: PBP_like_2; cl17296 574087002806 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 574087002807 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 574087002808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 574087002809 metal binding site [ion binding]; metal-binding site 574087002810 active site 574087002811 I-site; other site 574087002812 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 574087002813 FOG: CBS domain [General function prediction only]; Region: COG0517 574087002814 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 574087002815 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 574087002816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 574087002817 metal binding site [ion binding]; metal-binding site 574087002818 active site 574087002819 I-site; other site 574087002820 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 574087002821 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087002822 active site 574087002823 phosphorylation site [posttranslational modification] 574087002824 intermolecular recognition site; other site 574087002825 dimerization interface [polypeptide binding]; other site 574087002826 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 574087002827 DNA binding site [nucleotide binding] 574087002828 PBP superfamily domain; Region: PBP_like_2; cl17296 574087002829 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 574087002830 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 574087002831 dimer interface [polypeptide binding]; other site 574087002832 conserved gate region; other site 574087002833 putative PBP binding loops; other site 574087002834 ABC-ATPase subunit interface; other site 574087002835 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 574087002836 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 574087002837 dimer interface [polypeptide binding]; other site 574087002838 conserved gate region; other site 574087002839 putative PBP binding loops; other site 574087002840 ABC-ATPase subunit interface; other site 574087002841 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 574087002842 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 574087002843 Walker A/P-loop; other site 574087002844 ATP binding site [chemical binding]; other site 574087002845 Q-loop/lid; other site 574087002846 ABC transporter signature motif; other site 574087002847 Walker B; other site 574087002848 D-loop; other site 574087002849 H-loop/switch region; other site 574087002850 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 574087002851 PhoU domain; Region: PhoU; pfam01895 574087002852 PhoU domain; Region: PhoU; pfam01895 574087002853 HlyD family secretion protein; Region: HlyD_2; pfam12700 574087002854 putative membrane fusion protein; Region: TIGR02828 574087002855 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 574087002856 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 574087002857 putative active site [active] 574087002858 PhoH-like protein; Region: PhoH; pfam02562 574087002859 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087002860 PAS domain; Region: PAS_9; pfam13426 574087002861 putative active site [active] 574087002862 heme pocket [chemical binding]; other site 574087002863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 574087002864 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 574087002865 dimer interface [polypeptide binding]; other site 574087002866 phosphorylation site [posttranslational modification] 574087002867 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087002868 ATP binding site [chemical binding]; other site 574087002869 Mg2+ binding site [ion binding]; other site 574087002870 G-X-G motif; other site 574087002871 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 574087002872 GAF domain; Region: GAF; pfam01590 574087002873 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 574087002874 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 574087002875 metal binding site [ion binding]; metal-binding site 574087002876 active site 574087002877 I-site; other site 574087002878 GAF domain; Region: GAF; pfam01590 574087002879 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 574087002880 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087002881 PAS fold; Region: PAS_3; pfam08447 574087002882 putative active site [active] 574087002883 heme pocket [chemical binding]; other site 574087002884 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 574087002885 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087002886 Zn2+ binding site [ion binding]; other site 574087002887 Mg2+ binding site [ion binding]; other site 574087002888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087002889 Probable transposase; Region: OrfB_IS605; pfam01385 574087002890 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087002891 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 574087002892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 574087002893 metal binding site [ion binding]; metal-binding site 574087002894 active site 574087002895 I-site; other site 574087002896 hydroxylamine reductase; Provisional; Region: PRK12310 574087002897 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 574087002898 ACS interaction site; other site 574087002899 CODH interaction site; other site 574087002900 metal cluster binding site [ion binding]; other site 574087002901 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 574087002902 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 574087002903 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 574087002904 catalytic residue [active] 574087002905 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 574087002906 pyrroline-5-carboxylate reductase; Region: PLN02688 574087002907 YGGT family; Region: YGGT; pfam02325 574087002908 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 574087002909 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 574087002910 RNA binding surface [nucleotide binding]; other site 574087002911 DivIVA protein; Region: DivIVA; pfam05103 574087002912 DivIVA domain; Region: DivI1A_domain; TIGR03544 574087002913 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 574087002914 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 574087002915 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 574087002916 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 574087002917 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 574087002918 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 574087002919 HIGH motif; other site 574087002920 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 574087002921 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 574087002922 active site 574087002923 KMSKS motif; other site 574087002924 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 574087002925 tRNA binding surface [nucleotide binding]; other site 574087002926 anticodon binding site; other site 574087002927 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 574087002928 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 574087002929 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 574087002930 CPxP motif; other site 574087002931 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 574087002932 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 574087002933 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 574087002934 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574087002935 catalytic residue [active] 574087002936 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 574087002937 lipoprotein signal peptidase; Provisional; Region: PRK14787 574087002938 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 574087002939 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 574087002940 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 574087002941 RNA binding surface [nucleotide binding]; other site 574087002942 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 574087002943 active site 574087002944 4Fe-4S binding domain; Region: Fer4; cl02805 574087002945 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 574087002946 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 574087002947 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087002948 active site 574087002949 uracil transporter; Provisional; Region: PRK10720 574087002950 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 574087002951 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 574087002952 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 574087002953 dihydroorotase; Validated; Region: pyrC; PRK09357 574087002954 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 574087002955 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 574087002956 active site 574087002957 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 574087002958 active site 574087002959 dimer interface [polypeptide binding]; other site 574087002960 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 574087002961 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 574087002962 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 574087002963 catalytic site [active] 574087002964 subunit interface [polypeptide binding]; other site 574087002965 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 574087002966 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 574087002967 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 574087002968 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 574087002969 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 574087002970 ATP-grasp domain; Region: ATP-grasp_4; cl17255 574087002971 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 574087002972 IMP binding site; other site 574087002973 dimer interface [polypeptide binding]; other site 574087002974 interdomain contacts; other site 574087002975 partial ornithine binding site; other site 574087002976 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 574087002977 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 574087002978 FAD binding pocket [chemical binding]; other site 574087002979 FAD binding motif [chemical binding]; other site 574087002980 phosphate binding motif [ion binding]; other site 574087002981 beta-alpha-beta structure motif; other site 574087002982 NAD binding pocket [chemical binding]; other site 574087002983 Iron coordination center [ion binding]; other site 574087002984 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 574087002985 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 574087002986 heterodimer interface [polypeptide binding]; other site 574087002987 active site 574087002988 FMN binding site [chemical binding]; other site 574087002989 homodimer interface [polypeptide binding]; other site 574087002990 substrate binding site [chemical binding]; other site 574087002991 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087002992 active site 574087002993 Domain of unknown function DUF87; Region: DUF87; pfam01935 574087002994 HerA helicase [Replication, recombination, and repair]; Region: COG0433 574087002995 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 574087002996 DNA methylase; Region: N6_N4_Mtase; cl17433 574087002997 Fic family protein [Function unknown]; Region: COG3177 574087002998 Fic/DOC family; Region: Fic; pfam02661 574087002999 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 574087003000 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 574087003001 DNA binding residues [nucleotide binding] 574087003002 Probable transposase; Region: OrfB_IS605; pfam01385 574087003003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087003004 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087003005 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 574087003006 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 574087003007 Uncharacterized conserved protein [Function unknown]; Region: COG1262 574087003008 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 574087003009 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 574087003010 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 574087003011 Transposase; Region: HTH_Tnp_1; pfam01527 574087003012 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 574087003013 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 574087003014 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 574087003015 dimerization interface [polypeptide binding]; other site 574087003016 domain crossover interface; other site 574087003017 redox-dependent activation switch; other site 574087003018 Putative amidase domain; Region: Amidase_6; pfam12671 574087003019 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 574087003020 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 574087003021 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 574087003022 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087003023 putative active site [active] 574087003024 heme pocket [chemical binding]; other site 574087003025 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 574087003026 Walker A motif; other site 574087003027 ATP binding site [chemical binding]; other site 574087003028 Walker B motif; other site 574087003029 arginine finger; other site 574087003030 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 574087003031 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 574087003032 oligomerization interface [polypeptide binding]; other site 574087003033 active site 574087003034 metal binding site [ion binding]; metal-binding site 574087003035 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 574087003036 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 574087003037 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 574087003038 hypothetical protein; Provisional; Region: PRK07475 574087003039 BCCT family transporter; Region: BCCT; pfam02028 574087003040 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 574087003041 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 574087003042 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 574087003043 B12 binding site [chemical binding]; other site 574087003044 cobalt ligand [ion binding]; other site 574087003045 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 574087003046 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 574087003047 substrate binding pocket [chemical binding]; other site 574087003048 dimer interface [polypeptide binding]; other site 574087003049 inhibitor binding site; inhibition site 574087003050 hypothetical protein; Provisional; Region: PRK07475 574087003051 Cache domain; Region: Cache_1; pfam02743 574087003052 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 574087003053 dimerization interface [polypeptide binding]; other site 574087003054 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 574087003055 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087003056 dimer interface [polypeptide binding]; other site 574087003057 putative CheW interface [polypeptide binding]; other site 574087003058 Predicted aconitase [General function prediction only]; Region: COG1679 574087003059 Protein of unknown function (DUF521); Region: DUF521; pfam04412 574087003060 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 574087003061 substrate binding site [chemical binding]; other site 574087003062 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 574087003063 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087003064 Zn2+ binding site [ion binding]; other site 574087003065 Mg2+ binding site [ion binding]; other site 574087003066 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 574087003067 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087003068 Zn2+ binding site [ion binding]; other site 574087003069 Mg2+ binding site [ion binding]; other site 574087003070 Transcriptional regulators [Transcription]; Region: PurR; COG1609 574087003071 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 574087003072 DNA binding site [nucleotide binding] 574087003073 domain linker motif; other site 574087003074 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 574087003075 dimerization interface [polypeptide binding]; other site 574087003076 ligand binding site [chemical binding]; other site 574087003077 Cupin domain; Region: Cupin_2; pfam07883 574087003078 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 574087003079 Na binding site [ion binding]; other site 574087003080 Cupin domain; Region: Cupin_2; pfam07883 574087003081 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 574087003082 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 574087003083 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 574087003084 ligand binding site [chemical binding]; other site 574087003085 NAD binding site [chemical binding]; other site 574087003086 dimerization interface [polypeptide binding]; other site 574087003087 catalytic site [active] 574087003088 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 574087003089 KduI/IolB family; Region: KduI; pfam04962 574087003090 Creatinine amidohydrolase; Region: Creatininase; pfam02633 574087003091 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 574087003092 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 574087003093 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 574087003094 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 574087003095 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 574087003096 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 574087003097 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 574087003098 NAD(P) binding site [chemical binding]; other site 574087003099 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 574087003100 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 574087003101 B12 binding site [chemical binding]; other site 574087003102 cobalt ligand [ion binding]; other site 574087003103 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 574087003104 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 574087003105 substrate binding pocket [chemical binding]; other site 574087003106 dimer interface [polypeptide binding]; other site 574087003107 inhibitor binding site; inhibition site 574087003108 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 574087003109 Malic enzyme, N-terminal domain; Region: malic; pfam00390 574087003110 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 574087003111 putative NAD(P) binding site [chemical binding]; other site 574087003112 Protein of unknown function (DUF401); Region: DUF401; cl00830 574087003113 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 574087003114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 574087003115 Coenzyme A binding pocket [chemical binding]; other site 574087003116 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 574087003117 Domain of unknown function (DUF814); Region: DUF814; pfam05670 574087003118 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 574087003119 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 574087003120 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 574087003121 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 574087003122 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 574087003123 motif II; other site 574087003124 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 574087003125 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 574087003126 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 574087003127 putative binding surface; other site 574087003128 active site 574087003129 P2 response regulator binding domain; Region: P2; pfam07194 574087003130 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 574087003131 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 574087003132 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087003133 ATP binding site [chemical binding]; other site 574087003134 Mg2+ binding site [ion binding]; other site 574087003135 G-X-G motif; other site 574087003136 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 574087003137 Response regulator receiver domain; Region: Response_reg; pfam00072 574087003138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087003139 active site 574087003140 phosphorylation site [posttranslational modification] 574087003141 intermolecular recognition site; other site 574087003142 dimerization interface [polypeptide binding]; other site 574087003143 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 574087003144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087003145 active site 574087003146 phosphorylation site [posttranslational modification] 574087003147 intermolecular recognition site; other site 574087003148 dimerization interface [polypeptide binding]; other site 574087003149 CheB methylesterase; Region: CheB_methylest; pfam01339 574087003150 DNA gyrase subunit A; Validated; Region: PRK05560 574087003151 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 574087003152 CAP-like domain; other site 574087003153 active site 574087003154 primary dimer interface [polypeptide binding]; other site 574087003155 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574087003156 Predicted membrane protein [Function unknown]; Region: COG2323 574087003157 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 574087003158 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087003159 ATP binding site [chemical binding]; other site 574087003160 Mg2+ binding site [ion binding]; other site 574087003161 G-X-G motif; other site 574087003162 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 574087003163 anchoring element; other site 574087003164 dimer interface [polypeptide binding]; other site 574087003165 ATP binding site [chemical binding]; other site 574087003166 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 574087003167 active site 574087003168 metal binding site [ion binding]; metal-binding site 574087003169 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 574087003170 AAA domain; Region: AAA_11; pfam13086 574087003171 Part of AAA domain; Region: AAA_19; pfam13245 574087003172 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 574087003173 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 574087003174 AAA domain; Region: AAA_30; pfam13604 574087003175 AAA domain; Region: AAA_12; pfam13087 574087003176 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 574087003177 putative active site [active] 574087003178 putative transposase OrfB; Reviewed; Region: PHA02517 574087003179 HTH-like domain; Region: HTH_21; pfam13276 574087003180 Integrase core domain; Region: rve; pfam00665 574087003181 Integrase core domain; Region: rve_3; pfam13683 574087003182 Transposase; Region: HTH_Tnp_1; pfam01527 574087003183 Transposase domain (DUF772); Region: DUF772; pfam05598 574087003184 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 574087003185 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 574087003186 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087003187 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 574087003188 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 574087003189 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 574087003190 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 574087003191 Ubiquitin-like proteins; Region: UBQ; cl00155 574087003192 charged pocket; other site 574087003193 hydrophobic patch; other site 574087003194 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 574087003195 GAF domain; Region: GAF; pfam01590 574087003196 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087003197 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 574087003198 Walker A motif; other site 574087003199 ATP binding site [chemical binding]; other site 574087003200 Walker B motif; other site 574087003201 arginine finger; other site 574087003202 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 574087003203 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 574087003204 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 574087003205 dimer interface [polypeptide binding]; other site 574087003206 active site 574087003207 metal binding site [ion binding]; metal-binding site 574087003208 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 574087003209 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 574087003210 putative dimer interface [polypeptide binding]; other site 574087003211 [2Fe-2S] cluster binding site [ion binding]; other site 574087003212 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 574087003213 dimer interface [polypeptide binding]; other site 574087003214 [2Fe-2S] cluster binding site [ion binding]; other site 574087003215 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 574087003216 SLBB domain; Region: SLBB; pfam10531 574087003217 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 574087003218 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087003219 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 574087003220 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087003221 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 574087003222 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 574087003223 ACS interaction site; other site 574087003224 CODH interaction site; other site 574087003225 cubane metal cluster (B-cluster) [ion binding]; other site 574087003226 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 574087003227 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 574087003228 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087003229 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 574087003230 catalytic loop [active] 574087003231 iron binding site [ion binding]; other site 574087003232 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087003233 4Fe-4S binding domain; Region: Fer4; pfam00037 574087003234 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 574087003235 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 574087003236 P-loop; other site 574087003237 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 574087003238 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 574087003239 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 574087003240 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 574087003241 glutamate racemase; Provisional; Region: PRK00865 574087003242 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 574087003243 Ferritin-like domain; Region: Ferritin; pfam00210 574087003244 ferroxidase diiron center [ion binding]; other site 574087003245 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 574087003246 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 574087003247 non-heme iron binding site [ion binding]; other site 574087003248 dimer interface [polypeptide binding]; other site 574087003249 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 574087003250 non-heme iron binding site [ion binding]; other site 574087003251 Rubrerythrin [Energy production and conversion]; Region: COG1592 574087003252 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 574087003253 binuclear metal center [ion binding]; other site 574087003254 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 574087003255 iron binding site [ion binding]; other site 574087003256 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003257 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 574087003258 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003259 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003260 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003261 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 574087003262 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003263 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003264 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003265 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003266 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003267 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003268 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003269 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003270 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003271 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 574087003272 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003273 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003274 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003275 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087003276 PAS domain; Region: PAS_9; pfam13426 574087003277 putative active site [active] 574087003278 heme pocket [chemical binding]; other site 574087003279 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 574087003280 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087003281 Zn2+ binding site [ion binding]; other site 574087003282 Mg2+ binding site [ion binding]; other site 574087003283 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 574087003284 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 574087003285 nucleophile elbow; other site 574087003286 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 574087003287 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 574087003288 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 574087003289 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 574087003290 hypothetical protein; Provisional; Region: PRK13670 574087003291 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 574087003292 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 574087003293 propionate/acetate kinase; Provisional; Region: PRK12379 574087003294 Domain of unknown function (DUF368); Region: DUF368; pfam04018 574087003295 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 574087003296 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 574087003297 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 574087003298 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 574087003299 propionate/acetate kinase; Provisional; Region: PRK12379 574087003300 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 574087003301 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 574087003302 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 574087003303 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 574087003304 active site 2 [active] 574087003305 active site 1 [active] 574087003306 putative phosphate acyltransferase; Provisional; Region: PRK05331 574087003307 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 574087003308 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 574087003309 dimer interface [polypeptide binding]; other site 574087003310 active site 574087003311 CoA binding pocket [chemical binding]; other site 574087003312 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 574087003313 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 574087003314 FMN binding site [chemical binding]; other site 574087003315 substrate binding site [chemical binding]; other site 574087003316 putative catalytic residue [active] 574087003317 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 574087003318 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 574087003319 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 574087003320 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 574087003321 NAD(P) binding site [chemical binding]; other site 574087003322 homotetramer interface [polypeptide binding]; other site 574087003323 homodimer interface [polypeptide binding]; other site 574087003324 active site 574087003325 acyl carrier protein; Provisional; Region: acpP; PRK00982 574087003326 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 574087003327 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 574087003328 FMN binding site [chemical binding]; other site 574087003329 substrate binding site [chemical binding]; other site 574087003330 putative catalytic residue [active] 574087003331 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 574087003332 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 574087003333 dimer interface [polypeptide binding]; other site 574087003334 active site 574087003335 ribonuclease III; Reviewed; Region: rnc; PRK00102 574087003336 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 574087003337 dimerization interface [polypeptide binding]; other site 574087003338 active site 574087003339 metal binding site [ion binding]; metal-binding site 574087003340 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 574087003341 dsRNA binding site [nucleotide binding]; other site 574087003342 Probable transposase; Region: OrfB_IS605; pfam01385 574087003343 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087003344 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 574087003345 HI0933-like protein; Region: HI0933_like; pfam03486 574087003346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574087003347 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 574087003348 hexamer interface [polypeptide binding]; other site 574087003349 RNA binding site [nucleotide binding]; other site 574087003350 Histidine-zinc binding site [chemical binding]; other site 574087003351 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 574087003352 homotrimer interaction site [polypeptide binding]; other site 574087003353 active site 574087003354 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 574087003355 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 574087003356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087003357 homodimer interface [polypeptide binding]; other site 574087003358 catalytic residue [active] 574087003359 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 574087003360 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 574087003361 prephenate dehydrogenase; Validated; Region: PRK08507 574087003362 prephenate dehydrogenase; Validated; Region: PRK06545 574087003363 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 574087003364 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 574087003365 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 574087003366 hinge; other site 574087003367 active site 574087003368 cytidylate kinase; Provisional; Region: cmk; PRK00023 574087003369 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 574087003370 CMP-binding site; other site 574087003371 The sites determining sugar specificity; other site 574087003372 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 574087003373 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 574087003374 putative acyl-acceptor binding pocket; other site 574087003375 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 574087003376 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 574087003377 GAF domain; Region: GAF; cl17456 574087003378 Histidine kinase; Region: His_kinase; pfam06580 574087003379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087003380 ATP binding site [chemical binding]; other site 574087003381 Mg2+ binding site [ion binding]; other site 574087003382 G-X-G motif; other site 574087003383 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 574087003384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087003385 active site 574087003386 phosphorylation site [posttranslational modification] 574087003387 intermolecular recognition site; other site 574087003388 dimerization interface [polypeptide binding]; other site 574087003389 LytTr DNA-binding domain; Region: LytTR; smart00850 574087003390 Carbon starvation protein CstA; Region: CstA; pfam02554 574087003391 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 574087003392 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 574087003393 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 574087003394 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 574087003395 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 574087003396 RNA binding site [nucleotide binding]; other site 574087003397 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 574087003398 RNA binding site [nucleotide binding]; other site 574087003399 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 574087003400 RNA binding site [nucleotide binding]; other site 574087003401 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 574087003402 RNA binding site [nucleotide binding]; other site 574087003403 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 574087003404 stage II sporulation protein P; Region: spore_II_P; TIGR02867 574087003405 YIEGIA protein; Region: YIEGIA; pfam14045 574087003406 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 574087003407 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 574087003408 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 574087003409 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 574087003410 Protein of unknown function (DUF512); Region: DUF512; pfam04459 574087003411 GTP-binding protein Der; Reviewed; Region: PRK00093 574087003412 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 574087003413 G1 box; other site 574087003414 GTP/Mg2+ binding site [chemical binding]; other site 574087003415 Switch I region; other site 574087003416 G2 box; other site 574087003417 Switch II region; other site 574087003418 G3 box; other site 574087003419 G4 box; other site 574087003420 G5 box; other site 574087003421 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 574087003422 G1 box; other site 574087003423 GTP/Mg2+ binding site [chemical binding]; other site 574087003424 Switch I region; other site 574087003425 G2 box; other site 574087003426 G3 box; other site 574087003427 Switch II region; other site 574087003428 G4 box; other site 574087003429 G5 box; other site 574087003430 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 574087003431 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 574087003432 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 574087003433 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 574087003434 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 574087003435 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 574087003436 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 574087003437 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 574087003438 BCCT family transporter; Region: BCCT; pfam02028 574087003439 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 574087003440 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 574087003441 B12 binding site [chemical binding]; other site 574087003442 cobalt ligand [ion binding]; other site 574087003443 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 574087003444 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 574087003445 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 574087003446 B12 binding site [chemical binding]; other site 574087003447 cobalt ligand [ion binding]; other site 574087003448 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 574087003449 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 574087003450 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 574087003451 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 574087003452 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 574087003453 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 574087003454 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 574087003455 substrate binding pocket [chemical binding]; other site 574087003456 dimer interface [polypeptide binding]; other site 574087003457 inhibitor binding site; inhibition site 574087003458 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 574087003459 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 574087003460 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 574087003461 glycine/sarcosine/betaine reductase complex protein A; Reviewed; Region: PRK13265 574087003462 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 574087003463 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 574087003464 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574087003465 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 574087003466 catalytic residues [active] 574087003467 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 574087003468 catalytic residues [active] 574087003469 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 574087003470 dimer interface [polypeptide binding]; other site 574087003471 active site 574087003472 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 574087003473 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 574087003474 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 574087003475 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 574087003476 IHF dimer interface [polypeptide binding]; other site 574087003477 IHF - DNA interface [nucleotide binding]; other site 574087003478 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 574087003479 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 574087003480 homodimer interface [polypeptide binding]; other site 574087003481 substrate-cofactor binding pocket; other site 574087003482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087003483 catalytic residue [active] 574087003484 hypothetical protein; Provisional; Region: PRK04435 574087003485 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 574087003486 homoserine dehydrogenase; Provisional; Region: PRK06349 574087003487 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 574087003488 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 574087003489 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 574087003490 aspartate kinase; Reviewed; Region: PRK06635 574087003491 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 574087003492 putative catalytic residues [active] 574087003493 putative nucleotide binding site [chemical binding]; other site 574087003494 putative aspartate binding site [chemical binding]; other site 574087003495 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 574087003496 putative allosteric regulatory site; other site 574087003497 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 574087003498 putative allosteric regulatory residue; other site 574087003499 homoserine kinase; Provisional; Region: PRK01212 574087003500 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 574087003501 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 574087003502 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 574087003503 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 574087003504 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 574087003505 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 574087003506 substrate binding pocket [chemical binding]; other site 574087003507 dimer interface [polypeptide binding]; other site 574087003508 inhibitor binding site; inhibition site 574087003509 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 574087003510 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 574087003511 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574087003512 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574087003513 Predicted transcriptional regulators [Transcription]; Region: COG1695 574087003514 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 574087003515 Predicted membrane protein [Function unknown]; Region: COG2323 574087003516 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 574087003517 active site 574087003518 DNA binding site [nucleotide binding] 574087003519 HTH domain; Region: HTH_11; pfam08279 574087003520 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 574087003521 3H domain; Region: 3H; pfam02829 574087003522 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 574087003523 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 574087003524 dimerization interface [polypeptide binding]; other site 574087003525 active site 574087003526 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 574087003527 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 574087003528 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 574087003529 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 574087003530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 574087003531 Uncharacterized conserved protein [Function unknown]; Region: COG1543 574087003532 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 574087003533 active site 574087003534 substrate binding site [chemical binding]; other site 574087003535 catalytic site [active] 574087003536 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 574087003537 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 574087003538 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 574087003539 ligand binding site; other site 574087003540 oligomer interface; other site 574087003541 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 574087003542 dimer interface [polypeptide binding]; other site 574087003543 N-terminal domain interface [polypeptide binding]; other site 574087003544 sulfate 1 binding site; other site 574087003545 glycogen synthase; Provisional; Region: glgA; PRK00654 574087003546 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 574087003547 ADP-binding pocket [chemical binding]; other site 574087003548 homodimer interface [polypeptide binding]; other site 574087003549 RRXRR protein; Region: RRXRR; pfam14239 574087003550 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 574087003551 active site 574087003552 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 574087003553 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 574087003554 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 574087003555 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 574087003556 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 574087003557 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 574087003558 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 574087003559 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574087003560 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 574087003561 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574087003562 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 574087003563 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574087003564 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 574087003565 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 574087003566 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 574087003567 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 574087003568 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 574087003569 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 574087003570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087003571 catalytic residue [active] 574087003572 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 574087003573 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 574087003574 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 574087003575 Heavy-metal-associated domain; Region: HMA; pfam00403 574087003576 metal-binding site [ion binding] 574087003577 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 574087003578 Soluble P-type ATPase [General function prediction only]; Region: COG4087 574087003579 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 574087003580 DNA-binding site [nucleotide binding]; DNA binding site 574087003581 RNA-binding motif; other site 574087003582 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 574087003583 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 574087003584 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 574087003585 protein binding site [polypeptide binding]; other site 574087003586 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 574087003587 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087003588 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 574087003589 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087003590 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 574087003591 stage V sporulation protein T; Region: spore_V_T; TIGR02851 574087003592 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 574087003593 GAF domain; Region: GAF; cl17456 574087003594 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 574087003595 dimerization interface [polypeptide binding]; other site 574087003596 putative DNA binding site [nucleotide binding]; other site 574087003597 putative Zn2+ binding site [ion binding]; other site 574087003598 Protein of unknown function, DUF606; Region: DUF606; pfam04657 574087003599 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 574087003600 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 574087003601 catalytic residues [active] 574087003602 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 574087003603 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 574087003604 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 574087003605 active site 574087003606 dimer interface [polypeptide binding]; other site 574087003607 effector binding site; other site 574087003608 TSCPD domain; Region: TSCPD; pfam12637 574087003609 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 574087003610 PrcB C-terminal; Region: PrcB_C; pfam14343 574087003611 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 574087003612 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 574087003613 active site 574087003614 metal binding site [ion binding]; metal-binding site 574087003615 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 574087003616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087003617 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 574087003618 DNA binding residues [nucleotide binding] 574087003619 Putative zinc-finger; Region: zf-HC2; pfam13490 574087003620 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 574087003621 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087003622 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 574087003623 putative ADP-binding pocket [chemical binding]; other site 574087003624 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 574087003625 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 574087003626 non-specific DNA binding site [nucleotide binding]; other site 574087003627 salt bridge; other site 574087003628 sequence-specific DNA binding site [nucleotide binding]; other site 574087003629 Cupin domain; Region: Cupin_2; cl17218 574087003630 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 574087003631 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 574087003632 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087003633 Surface antigen; Region: Bac_surface_Ag; pfam01103 574087003634 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 574087003635 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 574087003636 Methyltransferase domain; Region: Methyltransf_23; pfam13489 574087003637 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 574087003638 S-adenosylmethionine binding site [chemical binding]; other site 574087003639 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 574087003640 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 574087003641 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 574087003642 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 574087003643 homodimer interface [polypeptide binding]; other site 574087003644 substrate-cofactor binding pocket; other site 574087003645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087003646 catalytic residue [active] 574087003647 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 574087003648 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 574087003649 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 574087003650 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 574087003651 dimerization interface [polypeptide binding]; other site 574087003652 putative ATP binding site [chemical binding]; other site 574087003653 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 574087003654 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 574087003655 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 574087003656 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087003657 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 574087003658 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 574087003659 DNA binding residues [nucleotide binding] 574087003660 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 574087003661 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 574087003662 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 574087003663 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 574087003664 FeS/SAM binding site; other site 574087003665 TRAM domain; Region: TRAM; cl01282 574087003666 Protein of unknown function (DUF964); Region: DUF964; pfam06133 574087003667 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 574087003668 MutS domain I; Region: MutS_I; pfam01624 574087003669 MutS domain II; Region: MutS_II; pfam05188 574087003670 MutS domain III; Region: MutS_III; pfam05192 574087003671 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 574087003672 Walker A/P-loop; other site 574087003673 ATP binding site [chemical binding]; other site 574087003674 Q-loop/lid; other site 574087003675 ABC transporter signature motif; other site 574087003676 Walker B; other site 574087003677 D-loop; other site 574087003678 H-loop/switch region; other site 574087003679 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 574087003680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087003681 ATP binding site [chemical binding]; other site 574087003682 Mg2+ binding site [ion binding]; other site 574087003683 G-X-G motif; other site 574087003684 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 574087003685 ATP binding site [chemical binding]; other site 574087003686 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 574087003687 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 574087003688 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 574087003689 stage V sporulation protein K; Region: spore_V_K; TIGR02881 574087003690 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 574087003691 Walker A motif; other site 574087003692 ATP binding site [chemical binding]; other site 574087003693 Walker B motif; other site 574087003694 arginine finger; other site 574087003695 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 574087003696 G1 box; other site 574087003697 GTP/Mg2+ binding site [chemical binding]; other site 574087003698 G2 box; other site 574087003699 Switch I region; other site 574087003700 G3 box; other site 574087003701 Switch II region; other site 574087003702 G4 box; other site 574087003703 G5 box; other site 574087003704 bacterial Hfq-like; Region: Hfq; cd01716 574087003705 hexamer interface [polypeptide binding]; other site 574087003706 Sm1 motif; other site 574087003707 RNA binding site [nucleotide binding]; other site 574087003708 Sm2 motif; other site 574087003709 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 574087003710 binding surface 574087003711 Tetratricopeptide repeat; Region: TPR_12; pfam13424 574087003712 TPR motif; other site 574087003713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 574087003714 Transposase; Region: HTH_Tnp_1; pfam01527 574087003715 putative transposase OrfB; Reviewed; Region: PHA02517 574087003716 HTH-like domain; Region: HTH_21; pfam13276 574087003717 Integrase core domain; Region: rve; pfam00665 574087003718 Integrase core domain; Region: rve_3; pfam13683 574087003719 Y-family of DNA polymerases; Region: PolY; cl12025 574087003720 active site 574087003721 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cl02529 574087003722 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003723 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003724 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003725 Ankyrin repeat; Region: Ank; pfam00023 574087003726 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003727 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003728 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003729 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 574087003730 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574087003731 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 574087003732 stage V sporulation protein B; Region: spore_V_B; TIGR02900 574087003733 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 574087003734 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 574087003735 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 574087003736 active site 574087003737 DNA binding site [nucleotide binding] 574087003738 Int/Topo IB signature motif; other site 574087003739 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 574087003740 GIY-YIG motif/motif A; other site 574087003741 active site 574087003742 catalytic site [active] 574087003743 metal binding site [ion binding]; metal-binding site 574087003744 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 574087003745 active site 574087003746 catalytic residues [active] 574087003747 Int/Topo IB signature motif; other site 574087003748 DNA binding site [nucleotide binding] 574087003749 LexA repressor; Validated; Region: PRK00215 574087003750 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 574087003751 putative DNA binding site [nucleotide binding]; other site 574087003752 putative Zn2+ binding site [ion binding]; other site 574087003753 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 574087003754 Catalytic site [active] 574087003755 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 574087003756 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 574087003757 putative active site [active] 574087003758 catalytic triad [active] 574087003759 putative dimer interface [polypeptide binding]; other site 574087003760 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 574087003761 Predicted membrane protein [Function unknown]; Region: COG2119 574087003762 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 574087003763 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 574087003764 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 574087003765 ligand binding site [chemical binding]; other site 574087003766 flexible hinge region; other site 574087003767 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 574087003768 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087003769 Ferredoxin [Energy production and conversion]; Region: COG1146 574087003770 Thiamine pyrophosphokinase; Region: TPK; cd07995 574087003771 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 574087003772 active site 574087003773 dimerization interface [polypeptide binding]; other site 574087003774 thiamine binding site [chemical binding]; other site 574087003775 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 574087003776 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 574087003777 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 574087003778 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 574087003779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 574087003780 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 574087003781 Predicted permeases [General function prediction only]; Region: COG0795 574087003782 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 574087003783 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 574087003784 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 574087003785 ATP binding site [chemical binding]; other site 574087003786 putative Mg++ binding site [ion binding]; other site 574087003787 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 574087003788 nucleotide binding region [chemical binding]; other site 574087003789 ATP-binding site [chemical binding]; other site 574087003790 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 574087003791 HRDC domain; Region: HRDC; pfam00570 574087003792 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 574087003793 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 574087003794 active site 574087003795 NTP binding site [chemical binding]; other site 574087003796 metal binding triad [ion binding]; metal-binding site 574087003797 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 574087003798 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087003799 Zn2+ binding site [ion binding]; other site 574087003800 Mg2+ binding site [ion binding]; other site 574087003801 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 574087003802 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 574087003803 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 574087003804 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 574087003805 metal binding site [ion binding]; metal-binding site 574087003806 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 574087003807 homotrimer interaction site [polypeptide binding]; other site 574087003808 putative active site [active] 574087003809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 574087003810 YheO-like PAS domain; Region: PAS_6; pfam08348 574087003811 HTH domain; Region: HTH_22; pfam13309 574087003812 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 574087003813 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 574087003814 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 574087003815 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 574087003816 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 574087003817 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 574087003818 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 574087003819 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 574087003820 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 574087003821 DNA binding residues [nucleotide binding] 574087003822 dimerization interface [polypeptide binding]; other site 574087003823 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 574087003824 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 574087003825 EamA-like transporter family; Region: EamA; pfam00892 574087003826 Putative serine esterase (DUF676); Region: DUF676; pfam05057 574087003827 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 574087003828 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 574087003829 Protein of unknown function, DUF606; Region: DUF606; pfam04657 574087003830 QueT transporter; Region: QueT; pfam06177 574087003831 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 574087003832 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 574087003833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087003834 homodimer interface [polypeptide binding]; other site 574087003835 catalytic residue [active] 574087003836 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 574087003837 hypothetical protein; Provisional; Region: PRK07524 574087003838 PYR/PP interface [polypeptide binding]; other site 574087003839 dimer interface [polypeptide binding]; other site 574087003840 TPP binding site [chemical binding]; other site 574087003841 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 574087003842 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; cd00568 574087003843 TPP-binding site [chemical binding]; other site 574087003844 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 574087003845 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 574087003846 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 574087003847 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 574087003848 Predicted membrane protein [Function unknown]; Region: COG2323 574087003849 BCCT family transporter; Region: BCCT; pfam02028 574087003850 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 574087003851 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 574087003852 substrate binding pocket [chemical binding]; other site 574087003853 dimer interface [polypeptide binding]; other site 574087003854 inhibitor binding site; inhibition site 574087003855 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 574087003856 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 574087003857 B12 binding site [chemical binding]; other site 574087003858 cobalt ligand [ion binding]; other site 574087003859 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 574087003860 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087003861 Probable transposase; Region: OrfB_IS605; pfam01385 574087003862 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087003863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 574087003864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 574087003865 hypothetical protein; Provisional; Region: PRK10621 574087003866 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 574087003867 Bacterial SH3 domain homologues; Region: SH3b; smart00287 574087003868 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 574087003869 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 574087003870 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087003871 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 574087003872 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087003873 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087003874 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 574087003875 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 574087003876 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 574087003877 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 574087003878 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 574087003879 FeS/SAM binding site; other site 574087003880 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 574087003881 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 574087003882 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 574087003883 nudix motif; other site 574087003884 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 574087003885 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 574087003886 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 574087003887 RNA/DNA hybrid binding site [nucleotide binding]; other site 574087003888 active site 574087003889 Peptidase family M48; Region: Peptidase_M48; cl12018 574087003890 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 574087003891 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 574087003892 Peptidase family U32; Region: Peptidase_U32; pfam01136 574087003893 Collagenase; Region: DUF3656; pfam12392 574087003894 Peptidase family U32; Region: Peptidase_U32; pfam01136 574087003895 Staygreen protein; Region: Staygreen; pfam12638 574087003896 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 574087003897 Probable transposase; Region: OrfB_IS605; pfam01385 574087003898 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087003899 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 574087003900 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 574087003901 putative amphipathic alpha helix; other site 574087003902 methionine sulfoxide reductase B; Provisional; Region: PRK00222 574087003903 SelR domain; Region: SelR; pfam01641 574087003904 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 574087003905 S-adenosylmethionine binding site [chemical binding]; other site 574087003906 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 574087003907 FMN-binding domain; Region: FMN_bind; cl01081 574087003908 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 574087003909 nudix motif; other site 574087003910 heat shock protein 90; Provisional; Region: PRK05218 574087003911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087003912 ATP binding site [chemical binding]; other site 574087003913 Mg2+ binding site [ion binding]; other site 574087003914 G-X-G motif; other site 574087003915 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 574087003916 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 574087003917 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 574087003918 C-terminal domain interface [polypeptide binding]; other site 574087003919 sugar binding site [chemical binding]; other site 574087003920 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 574087003921 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 574087003922 active site 574087003923 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 574087003924 substrate binding site [chemical binding]; other site 574087003925 catalytic residues [active] 574087003926 dimer interface [polypeptide binding]; other site 574087003927 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087003928 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 574087003929 putative active site [active] 574087003930 heme pocket [chemical binding]; other site 574087003931 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087003932 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 574087003933 putative active site [active] 574087003934 heme pocket [chemical binding]; other site 574087003935 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087003936 putative active site [active] 574087003937 heme pocket [chemical binding]; other site 574087003938 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 574087003939 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 574087003940 dimer interface [polypeptide binding]; other site 574087003941 phosphorylation site [posttranslational modification] 574087003942 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087003943 ATP binding site [chemical binding]; other site 574087003944 Mg2+ binding site [ion binding]; other site 574087003945 G-X-G motif; other site 574087003946 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 574087003947 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 574087003948 putative active site [active] 574087003949 putative NTP binding site [chemical binding]; other site 574087003950 putative nucleic acid binding site [nucleotide binding]; other site 574087003951 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 574087003952 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 574087003953 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087003954 putative active site [active] 574087003955 heme pocket [chemical binding]; other site 574087003956 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 574087003957 dimer interface [polypeptide binding]; other site 574087003958 phosphorylation site [posttranslational modification] 574087003959 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087003960 ATP binding site [chemical binding]; other site 574087003961 Mg2+ binding site [ion binding]; other site 574087003962 G-X-G motif; other site 574087003963 AAA domain; Region: AAA_32; pfam13654 574087003964 AAA domain; Region: AAA_17; pfam13207 574087003965 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 574087003966 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 574087003967 Peptidase family M23; Region: Peptidase_M23; pfam01551 574087003968 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087003969 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 574087003970 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 574087003971 NodB motif; other site 574087003972 active site 574087003973 catalytic site [active] 574087003974 metal binding site [ion binding]; metal-binding site 574087003975 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 574087003976 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 574087003977 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 574087003978 active site 574087003979 metal binding site [ion binding]; metal-binding site 574087003980 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 574087003981 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 574087003982 substrate binding pocket [chemical binding]; other site 574087003983 dimer interface [polypeptide binding]; other site 574087003984 inhibitor binding site; inhibition site 574087003985 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 574087003986 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 574087003987 B12 binding site [chemical binding]; other site 574087003988 cobalt ligand [ion binding]; other site 574087003989 Dimethylamine methyltransferase (Dimeth_PyL); Region: Dimeth_Pyl; cl09737 574087003990 Staphylococcal nuclease homologues; Region: SNc; smart00318 574087003991 Catalytic site; other site 574087003992 Staphylococcal nuclease homologue; Region: SNase; pfam00565 574087003993 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 574087003994 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 574087003995 putative dimer interface [polypeptide binding]; other site 574087003996 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 574087003997 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 574087003998 putative dimer interface [polypeptide binding]; other site 574087003999 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 574087004000 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 574087004001 active site 574087004002 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 574087004003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 574087004004 Coenzyme A binding pocket [chemical binding]; other site 574087004005 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 574087004006 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 574087004007 FeS/SAM binding site; other site 574087004008 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 574087004009 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 574087004010 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 574087004011 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 574087004012 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 574087004013 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 574087004014 Ligand Binding Site [chemical binding]; other site 574087004015 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 574087004016 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 574087004017 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574087004018 catalytic residue [active] 574087004019 Domain of unknown function DUF77; Region: DUF77; pfam01910 574087004020 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]; Region: COG1031 574087004021 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 574087004022 Na2 binding site [ion binding]; other site 574087004023 putative substrate binding site 1 [chemical binding]; other site 574087004024 Na binding site 1 [ion binding]; other site 574087004025 putative substrate binding site 2 [chemical binding]; other site 574087004026 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 574087004027 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 574087004028 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 574087004029 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 574087004030 Malic enzyme, N-terminal domain; Region: malic; pfam00390 574087004031 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 574087004032 NAD(P) binding pocket [chemical binding]; other site 574087004033 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 574087004034 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 574087004035 oligomer interface [polypeptide binding]; other site 574087004036 active site 574087004037 metal binding site [ion binding]; metal-binding site 574087004038 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 574087004039 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 574087004040 oligomer interface [polypeptide binding]; other site 574087004041 active site 574087004042 metal binding site [ion binding]; metal-binding site 574087004043 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 574087004044 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 574087004045 oligomer interface [polypeptide binding]; other site 574087004046 active site 574087004047 metal binding site [ion binding]; metal-binding site 574087004048 VanW like protein; Region: VanW; pfam04294 574087004049 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 574087004050 Uncharacterized conserved protein [Function unknown]; Region: COG1615 574087004051 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 574087004052 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 574087004053 substrate binding pocket [chemical binding]; other site 574087004054 dimer interface [polypeptide binding]; other site 574087004055 inhibitor binding site; inhibition site 574087004056 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 574087004057 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 574087004058 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 574087004059 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 574087004060 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 574087004061 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 574087004062 catalytic loop [active] 574087004063 iron binding site [ion binding]; other site 574087004064 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 574087004065 Putative Fe-S cluster; Region: FeS; pfam04060 574087004066 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 574087004067 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 574087004068 ACS interaction site; other site 574087004069 CODH interaction site; other site 574087004070 metal cluster binding site [ion binding]; other site 574087004071 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 574087004072 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 574087004073 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 574087004074 ACS interaction site; other site 574087004075 CODH interaction site; other site 574087004076 cubane metal cluster (B-cluster) [ion binding]; other site 574087004077 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 574087004078 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 574087004079 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 574087004080 P-loop; other site 574087004081 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 574087004082 von Willebrand factor type A domain; Region: VWA_2; pfam13519 574087004083 metal ion-dependent adhesion site (MIDAS); other site 574087004084 GAF domain; Region: GAF_2; pfam13185 574087004085 GAF domain; Region: GAF_3; pfam13492 574087004086 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 574087004087 GAF domain; Region: GAF_3; pfam13492 574087004088 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 574087004089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 574087004090 metal binding site [ion binding]; metal-binding site 574087004091 active site 574087004092 I-site; other site 574087004093 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 574087004094 trimer interface [polypeptide binding]; other site 574087004095 putative Zn binding site [ion binding]; other site 574087004096 Uncharacterized conserved protein [Function unknown]; Region: COG3339 574087004097 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 574087004098 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 574087004099 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 574087004100 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 574087004101 dimer interface [polypeptide binding]; other site 574087004102 active site 574087004103 metal binding site [ion binding]; metal-binding site 574087004104 glutathione binding site [chemical binding]; other site 574087004105 Protein of unknown function (DUF445); Region: DUF445; pfam04286 574087004106 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 574087004107 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 574087004108 PYR/PP interface [polypeptide binding]; other site 574087004109 dimer interface [polypeptide binding]; other site 574087004110 tetramer interface [polypeptide binding]; other site 574087004111 TPP binding site [chemical binding]; other site 574087004112 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 574087004113 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 574087004114 TPP-binding site [chemical binding]; other site 574087004115 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 574087004116 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 574087004117 dimer interface [polypeptide binding]; other site 574087004118 conserved gate region; other site 574087004119 putative PBP binding loops; other site 574087004120 ABC-ATPase subunit interface; other site 574087004121 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 574087004122 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 574087004123 Walker A/P-loop; other site 574087004124 ATP binding site [chemical binding]; other site 574087004125 Q-loop/lid; other site 574087004126 ABC transporter signature motif; other site 574087004127 Walker B; other site 574087004128 D-loop; other site 574087004129 H-loop/switch region; other site 574087004130 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 574087004131 NMT1-like family; Region: NMT1_2; pfam13379 574087004132 Uncharacterized conserved protein [Function unknown]; Region: COG2006 574087004133 Domain of unknown function (DUF362); Region: DUF362; pfam04015 574087004134 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 574087004135 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 574087004136 S-adenosylmethionine binding site [chemical binding]; other site 574087004137 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 574087004138 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 574087004139 catalytic residues [active] 574087004140 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 574087004141 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 574087004142 Walker A motif; other site 574087004143 ATP binding site [chemical binding]; other site 574087004144 Walker B motif; other site 574087004145 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 574087004146 Uncharacterized conserved protein [Function unknown]; Region: COG1434 574087004147 putative active site [active] 574087004148 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 574087004149 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 574087004150 active site 574087004151 metal binding site [ion binding]; metal-binding site 574087004152 homotetramer interface [polypeptide binding]; other site 574087004153 Transcriptional regulator [Transcription]; Region: LysR; COG0583 574087004154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 574087004155 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 574087004156 putative dimerization interface [polypeptide binding]; other site 574087004157 Soluble P-type ATPase [General function prediction only]; Region: COG4087 574087004158 Response regulator receiver domain; Region: Response_reg; pfam00072 574087004159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087004160 active site 574087004161 phosphorylation site [posttranslational modification] 574087004162 intermolecular recognition site; other site 574087004163 dimerization interface [polypeptide binding]; other site 574087004164 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 574087004165 Fe-S cluster binding site [ion binding]; other site 574087004166 active site 574087004167 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 574087004168 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 574087004169 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 574087004170 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 574087004171 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 574087004172 minor groove reading motif; other site 574087004173 helix-hairpin-helix signature motif; other site 574087004174 substrate binding pocket [chemical binding]; other site 574087004175 active site 574087004176 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 574087004177 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 574087004178 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 574087004179 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 574087004180 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 574087004181 Major Facilitator Superfamily; Region: MFS_1; pfam07690 574087004182 putative substrate translocation pore; other site 574087004183 Protein of unknown function (DUF441); Region: DUF441; pfam04284 574087004184 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 574087004185 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 574087004186 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 574087004187 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 574087004188 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 574087004189 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 574087004190 active site residue [active] 574087004191 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 574087004192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087004193 Walker A/P-loop; other site 574087004194 ATP binding site [chemical binding]; other site 574087004195 Q-loop/lid; other site 574087004196 ABC transporter signature motif; other site 574087004197 Walker B; other site 574087004198 D-loop; other site 574087004199 H-loop/switch region; other site 574087004200 TOBE domain; Region: TOBE; cl01440 574087004201 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 574087004202 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 574087004203 dimer interface [polypeptide binding]; other site 574087004204 conserved gate region; other site 574087004205 putative PBP binding loops; other site 574087004206 ABC-ATPase subunit interface; other site 574087004207 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 574087004208 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 574087004209 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 574087004210 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 574087004211 TOBE domain; Region: TOBE; cl01440 574087004212 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 574087004213 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 574087004214 acylphosphatase; Provisional; Region: PRK14450 574087004215 Cation transport protein; Region: TrkH; cl17365 574087004216 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 574087004217 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 574087004218 TrkA-N domain; Region: TrkA_N; pfam02254 574087004219 TrkA-C domain; Region: TrkA_C; pfam02080 574087004220 TrkA-N domain; Region: TrkA_N; pfam02254 574087004221 TrkA-C domain; Region: TrkA_C; pfam02080 574087004222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087004223 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 574087004224 Probable transposase; Region: OrfB_IS605; pfam01385 574087004225 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087004226 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 574087004227 hydrophobic ligand binding site; other site 574087004228 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 574087004229 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 574087004230 inhibitor-cofactor binding pocket; inhibition site 574087004231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087004232 catalytic residue [active] 574087004233 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 574087004234 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 574087004235 Predicted membrane protein [Function unknown]; Region: COG2323 574087004236 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 574087004237 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 574087004238 Walker A/P-loop; other site 574087004239 ATP binding site [chemical binding]; other site 574087004240 Q-loop/lid; other site 574087004241 ABC transporter signature motif; other site 574087004242 Walker B; other site 574087004243 D-loop; other site 574087004244 H-loop/switch region; other site 574087004245 ABC-2 type transporter; Region: ABC2_membrane; cl17235 574087004246 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 574087004247 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; cl00391 574087004248 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 574087004249 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 574087004250 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 574087004251 TrkA-N domain; Region: TrkA_N; pfam02254 574087004252 TrkA-C domain; Region: TrkA_C; pfam02080 574087004253 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 574087004254 TrkA-N domain; Region: TrkA_N; pfam02254 574087004255 Response regulator receiver domain; Region: Response_reg; pfam00072 574087004256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087004257 active site 574087004258 phosphorylation site [posttranslational modification] 574087004259 intermolecular recognition site; other site 574087004260 dimerization interface [polypeptide binding]; other site 574087004261 TPR repeat; Region: TPR_11; pfam13414 574087004262 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 574087004263 binding surface 574087004264 TPR motif; other site 574087004265 Response regulator receiver domain; Region: Response_reg; pfam00072 574087004266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087004267 active site 574087004268 phosphorylation site [posttranslational modification] 574087004269 intermolecular recognition site; other site 574087004270 dimerization interface [polypeptide binding]; other site 574087004271 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 574087004272 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 574087004273 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 574087004274 dimerization interface [polypeptide binding]; other site 574087004275 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 574087004276 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087004277 putative active site [active] 574087004278 heme pocket [chemical binding]; other site 574087004279 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 574087004280 dimer interface [polypeptide binding]; other site 574087004281 phosphorylation site [posttranslational modification] 574087004282 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087004283 ATP binding site [chemical binding]; other site 574087004284 Mg2+ binding site [ion binding]; other site 574087004285 G-X-G motif; other site 574087004286 putative transposase OrfB; Reviewed; Region: PHA02517 574087004287 HTH-like domain; Region: HTH_21; pfam13276 574087004288 Integrase core domain; Region: rve; pfam00665 574087004289 Integrase core domain; Region: rve_3; pfam13683 574087004290 Transposase; Region: HTH_Tnp_1; cl17663 574087004291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087004292 Probable transposase; Region: OrfB_IS605; pfam01385 574087004293 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087004294 Cache domain; Region: Cache_1; pfam02743 574087004295 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 574087004296 dimerization interface [polypeptide binding]; other site 574087004297 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087004298 dimer interface [polypeptide binding]; other site 574087004299 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 574087004300 putative CheW interface [polypeptide binding]; other site 574087004301 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 574087004302 active site 574087004303 NTP binding site [chemical binding]; other site 574087004304 metal binding triad [ion binding]; metal-binding site 574087004305 antibiotic binding site [chemical binding]; other site 574087004306 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 574087004307 NAD-dependent deacetylase; Provisional; Region: PRK00481 574087004308 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 574087004309 PglZ domain; Region: PglZ; pfam08665 574087004310 DNA methylase; Region: N6_N4_Mtase; cl17433 574087004311 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 574087004312 active site 574087004313 catalytic triad [active] 574087004314 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 574087004315 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 574087004316 Walker A motif; other site 574087004317 ATP binding site [chemical binding]; other site 574087004318 Walker B motif; other site 574087004319 arginine finger; other site 574087004320 HEAT repeats; Region: HEAT_2; pfam13646 574087004321 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 574087004322 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 574087004323 metal binding site [ion binding]; metal-binding site 574087004324 dimer interface [polypeptide binding]; other site 574087004325 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 574087004326 Na binding site [ion binding]; other site 574087004327 Part of AAA domain; Region: AAA_19; pfam13245 574087004328 putative recombination protein RecB; Provisional; Region: PRK13909 574087004329 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 574087004330 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 574087004331 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 574087004332 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 574087004333 active site 574087004334 dimerization interface [polypeptide binding]; other site 574087004335 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 574087004336 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 574087004337 putative metal binding site [ion binding]; other site 574087004338 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 574087004339 HSP70 interaction site [polypeptide binding]; other site 574087004340 B12-binding domain/radical SAM domain protein, Ta0216 family; Region: B12_SAM_Ta0216; TIGR04190 574087004341 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 574087004342 Nucleoside recognition; Region: Gate; pfam07670 574087004343 Nucleoside recognition; Region: Gate; pfam07670 574087004344 Mechanosensitive ion channel; Region: MS_channel; pfam00924 574087004345 Predicted membrane protein [Function unknown]; Region: COG2364 574087004346 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 574087004347 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 574087004348 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 574087004349 dimerization interface [polypeptide binding]; other site 574087004350 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 574087004351 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087004352 dimer interface [polypeptide binding]; other site 574087004353 putative CheW interface [polypeptide binding]; other site 574087004354 Domain of unknown function DUF20; Region: UPF0118; pfam01594 574087004355 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 574087004356 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 574087004357 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 574087004358 FeS/SAM binding site; other site 574087004359 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 574087004360 active site 574087004361 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 574087004362 Ligand Binding Site [chemical binding]; other site 574087004363 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 574087004364 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 574087004365 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 574087004366 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 574087004367 active site 574087004368 (T/H)XGH motif; other site 574087004369 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 574087004370 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 574087004371 S-adenosylmethionine binding site [chemical binding]; other site 574087004372 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 574087004373 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 574087004374 ssDNA binding site; other site 574087004375 generic binding surface II; other site 574087004376 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 574087004377 ATP binding site [chemical binding]; other site 574087004378 putative Mg++ binding site [ion binding]; other site 574087004379 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 574087004380 nucleotide binding region [chemical binding]; other site 574087004381 ATP-binding site [chemical binding]; other site 574087004382 EDD domain protein, DegV family; Region: DegV; TIGR00762 574087004383 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 574087004384 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 574087004385 DAK2 domain; Region: Dak2; pfam02734 574087004386 Asp23 family; Region: Asp23; pfam03780 574087004387 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 574087004388 ribosomal protein L28; Region: L28; TIGR00009 574087004389 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 574087004390 Malic enzyme, N-terminal domain; Region: malic; pfam00390 574087004391 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 574087004392 putative NAD(P) binding site [chemical binding]; other site 574087004393 alanine racemase; Reviewed; Region: alr; PRK00053 574087004394 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 574087004395 active site 574087004396 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 574087004397 dimer interface [polypeptide binding]; other site 574087004398 substrate binding site [chemical binding]; other site 574087004399 catalytic residues [active] 574087004400 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 574087004401 homopentamer interface [polypeptide binding]; other site 574087004402 active site 574087004403 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 574087004404 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 574087004405 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 574087004406 dimerization interface [polypeptide binding]; other site 574087004407 active site 574087004408 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 574087004409 Lumazine binding domain; Region: Lum_binding; pfam00677 574087004410 Lumazine binding domain; Region: Lum_binding; pfam00677 574087004411 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 574087004412 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 574087004413 catalytic motif [active] 574087004414 Zn binding site [ion binding]; other site 574087004415 RibD C-terminal domain; Region: RibD_C; cl17279 574087004416 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 574087004417 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 574087004418 substrate binding site [chemical binding]; other site 574087004419 hexamer interface [polypeptide binding]; other site 574087004420 metal binding site [ion binding]; metal-binding site 574087004421 GTPase RsgA; Reviewed; Region: PRK00098 574087004422 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 574087004423 RNA binding site [nucleotide binding]; other site 574087004424 homodimer interface [polypeptide binding]; other site 574087004425 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 574087004426 GTPase/Zn-binding domain interface [polypeptide binding]; other site 574087004427 GTP/Mg2+ binding site [chemical binding]; other site 574087004428 G4 box; other site 574087004429 G5 box; other site 574087004430 G1 box; other site 574087004431 Switch I region; other site 574087004432 G2 box; other site 574087004433 G3 box; other site 574087004434 Switch II region; other site 574087004435 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 574087004436 Catalytic domain of Protein Kinases; Region: PKc; cd00180 574087004437 active site 574087004438 ATP binding site [chemical binding]; other site 574087004439 substrate binding site [chemical binding]; other site 574087004440 activation loop (A-loop); other site 574087004441 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 574087004442 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 574087004443 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 574087004444 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 574087004445 Protein phosphatase 2C; Region: PP2C; pfam00481 574087004446 active site 574087004447 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 574087004448 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 574087004449 FeS/SAM binding site; other site 574087004450 16S rRNA methyltransferase B; Provisional; Region: PRK14902 574087004451 putative RNA binding site [nucleotide binding]; other site 574087004452 NusB family; Region: NusB; pfam01029 574087004453 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 574087004454 S-adenosylmethionine binding site [chemical binding]; other site 574087004455 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 574087004456 Protein of unknown function DUF116; Region: DUF116; pfam01976 574087004457 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 574087004458 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 574087004459 putative active site [active] 574087004460 substrate binding site [chemical binding]; other site 574087004461 putative cosubstrate binding site; other site 574087004462 catalytic site [active] 574087004463 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 574087004464 substrate binding site [chemical binding]; other site 574087004465 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 574087004466 active site 574087004467 catalytic residues [active] 574087004468 metal binding site [ion binding]; metal-binding site 574087004469 primosome assembly protein PriA; Validated; Region: PRK05580 574087004470 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 574087004471 ATP binding site [chemical binding]; other site 574087004472 putative Mg++ binding site [ion binding]; other site 574087004473 helicase superfamily c-terminal domain; Region: HELICc; smart00490 574087004474 ATP-binding site [chemical binding]; other site 574087004475 S-adenosylmethionine synthetase; Validated; Region: PRK05250 574087004476 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 574087004477 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 574087004478 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 574087004479 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 574087004480 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087004481 Walker A/P-loop; other site 574087004482 ATP binding site [chemical binding]; other site 574087004483 Q-loop/lid; other site 574087004484 ABC transporter signature motif; other site 574087004485 Walker B; other site 574087004486 D-loop; other site 574087004487 H-loop/switch region; other site 574087004488 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 574087004489 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 574087004490 TM-ABC transporter signature motif; other site 574087004491 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 574087004492 zinc binding site [ion binding]; other site 574087004493 putative ligand binding site [chemical binding]; other site 574087004494 S-ribosylhomocysteinase; Provisional; Region: PRK02260 574087004495 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 574087004496 Flavoprotein; Region: Flavoprotein; pfam02441 574087004497 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 574087004498 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 574087004499 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 574087004500 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 574087004501 catalytic site [active] 574087004502 G-X2-G-X-G-K; other site 574087004503 Domain of unknown function (DUF370); Region: DUF370; cl00898 574087004504 hypothetical protein; Provisional; Region: PRK11820 574087004505 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 574087004506 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 574087004507 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 574087004508 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 574087004509 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 574087004510 metal binding site [ion binding]; metal-binding site 574087004511 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 574087004512 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 574087004513 substrate binding site [chemical binding]; other site 574087004514 glutamase interaction surface [polypeptide binding]; other site 574087004515 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 574087004516 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 574087004517 catalytic residues [active] 574087004518 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 574087004519 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 574087004520 putative active site [active] 574087004521 oxyanion strand; other site 574087004522 catalytic triad [active] 574087004523 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 574087004524 putative active site pocket [active] 574087004525 4-fold oligomerization interface [polypeptide binding]; other site 574087004526 metal binding residues [ion binding]; metal-binding site 574087004527 3-fold/trimer interface [polypeptide binding]; other site 574087004528 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 574087004529 histidinol dehydrogenase; Region: hisD; TIGR00069 574087004530 NAD binding site [chemical binding]; other site 574087004531 dimerization interface [polypeptide binding]; other site 574087004532 product binding site; other site 574087004533 substrate binding site [chemical binding]; other site 574087004534 zinc binding site [ion binding]; other site 574087004535 catalytic residues [active] 574087004536 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 574087004537 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 574087004538 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 574087004539 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 574087004540 dimer interface [polypeptide binding]; other site 574087004541 motif 1; other site 574087004542 active site 574087004543 motif 2; other site 574087004544 motif 3; other site 574087004545 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 574087004546 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 574087004547 active site 574087004548 multimer interface [polypeptide binding]; other site 574087004549 S-layer homology domain; Region: SLH; pfam00395 574087004550 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 574087004551 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 574087004552 dockerin binding interface; other site 574087004553 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 574087004554 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 574087004555 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 574087004556 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 574087004557 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 574087004558 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 574087004559 active site 574087004560 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 574087004561 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 574087004562 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 574087004563 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 574087004564 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 574087004565 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 574087004566 putative active site [active] 574087004567 metal binding site [ion binding]; metal-binding site 574087004568 homodimer binding site [polypeptide binding]; other site 574087004569 phosphodiesterase; Provisional; Region: PRK12704 574087004570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087004571 Zn2+ binding site [ion binding]; other site 574087004572 Mg2+ binding site [ion binding]; other site 574087004573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087004574 Walker B; other site 574087004575 D-loop; other site 574087004576 H-loop/switch region; other site 574087004577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087004578 AAA domain; Region: AAA_23; pfam13476 574087004579 Walker A/P-loop; other site 574087004580 ATP binding site [chemical binding]; other site 574087004581 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 574087004582 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 574087004583 active site 574087004584 metal binding site [ion binding]; metal-binding site 574087004585 DNA binding site [nucleotide binding] 574087004586 recombinase A; Provisional; Region: recA; PRK09354 574087004587 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 574087004588 hexamer interface [polypeptide binding]; other site 574087004589 Walker A motif; other site 574087004590 ATP binding site [chemical binding]; other site 574087004591 Walker B motif; other site 574087004592 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 574087004593 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 574087004594 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 574087004595 active site 574087004596 metal binding site [ion binding]; metal-binding site 574087004597 competence damage-inducible protein A; Provisional; Region: PRK00549 574087004598 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 574087004599 putative MPT binding site; other site 574087004600 Competence-damaged protein; Region: CinA; pfam02464 574087004601 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 574087004602 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 574087004603 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 574087004604 dimer interface [polypeptide binding]; other site 574087004605 active site 574087004606 CoA binding pocket [chemical binding]; other site 574087004607 Cache domain; Region: Cache_1; pfam02743 574087004608 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 574087004609 dimerization interface [polypeptide binding]; other site 574087004610 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087004611 dimer interface [polypeptide binding]; other site 574087004612 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 574087004613 putative CheW interface [polypeptide binding]; other site 574087004614 Ubiquitin-like proteins; Region: UBQ; cl00155 574087004615 charged pocket; other site 574087004616 hydrophobic patch; other site 574087004617 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 574087004618 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 574087004619 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 574087004620 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 574087004621 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 574087004622 active site 574087004623 Zn binding site [ion binding]; other site 574087004624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087004625 Probable transposase; Region: OrfB_IS605; pfam01385 574087004626 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087004627 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 574087004628 catalytic site [active] 574087004629 metal binding site [ion binding]; metal-binding site 574087004630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 574087004631 Nucleoside recognition; Region: Gate; pfam07670 574087004632 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 574087004633 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 574087004634 putative active site [active] 574087004635 metal binding site [ion binding]; metal-binding site 574087004636 aspartate aminotransferase; Provisional; Region: PRK06348 574087004637 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 574087004638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087004639 homodimer interface [polypeptide binding]; other site 574087004640 catalytic residue [active] 574087004641 FOG: CBS domain [General function prediction only]; Region: COG0517 574087004642 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 574087004643 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 574087004644 predicted active site [active] 574087004645 catalytic triad [active] 574087004646 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 574087004647 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 574087004648 active site 574087004649 multimer interface [polypeptide binding]; other site 574087004650 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 574087004651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 574087004652 DNA-binding site [nucleotide binding]; DNA binding site 574087004653 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 574087004654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087004655 homodimer interface [polypeptide binding]; other site 574087004656 catalytic residue [active] 574087004657 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 574087004658 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 574087004659 FeS/SAM binding site; other site 574087004660 putative lipid kinase; Reviewed; Region: PRK13059 574087004661 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 574087004662 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 574087004663 FMN binding site [chemical binding]; other site 574087004664 dimer interface [polypeptide binding]; other site 574087004665 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 574087004666 FMN binding site [chemical binding]; other site 574087004667 dimer interface [polypeptide binding]; other site 574087004668 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 574087004669 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 574087004670 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 574087004671 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 574087004672 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 574087004673 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 574087004674 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087004675 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087004676 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087004677 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087004678 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087004679 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087004680 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 574087004681 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 574087004682 MoaE interaction surface [polypeptide binding]; other site 574087004683 MoeB interaction surface [polypeptide binding]; other site 574087004684 thiocarboxylated glycine; other site 574087004685 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 574087004686 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 574087004687 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 574087004688 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 574087004689 4Fe-4S binding domain; Region: Fer4; pfam00037 574087004690 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 574087004691 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 574087004692 Walker A motif; other site 574087004693 ATP binding site [chemical binding]; other site 574087004694 Walker B motif; other site 574087004695 arginine finger; other site 574087004696 Peptidase family M41; Region: Peptidase_M41; pfam01434 574087004697 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 574087004698 tetramer interfaces [polypeptide binding]; other site 574087004699 binuclear metal-binding site [ion binding]; other site 574087004700 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 574087004701 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 574087004702 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 574087004703 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 574087004704 FeS/SAM binding site; other site 574087004705 TRAM domain; Region: TRAM; cl01282 574087004706 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 574087004707 Uncharacterized conserved protein [Function unknown]; Region: COG2006 574087004708 4Fe-4S binding domain; Region: Fer4; pfam00037 574087004709 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 574087004710 homodecamer interface [polypeptide binding]; other site 574087004711 GTP cyclohydrolase I; Provisional; Region: PLN03044 574087004712 active site 574087004713 putative catalytic site residues [active] 574087004714 zinc binding site [ion binding]; other site 574087004715 GTP-CH-I/GFRP interaction surface; other site 574087004716 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 574087004717 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 574087004718 argininosuccinate lyase; Provisional; Region: PRK00855 574087004719 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 574087004720 active sites [active] 574087004721 tetramer interface [polypeptide binding]; other site 574087004722 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 574087004723 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 574087004724 Coenzyme A binding pocket [chemical binding]; other site 574087004725 argininosuccinate synthase; Provisional; Region: PRK13820 574087004726 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 574087004727 ANP binding site [chemical binding]; other site 574087004728 Substrate Binding Site II [chemical binding]; other site 574087004729 Substrate Binding Site I [chemical binding]; other site 574087004730 ornithine carbamoyltransferase; Provisional; Region: PRK00779 574087004731 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 574087004732 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 574087004733 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 574087004734 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 574087004735 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 574087004736 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 574087004737 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 574087004738 ATP-grasp domain; Region: ATP-grasp_4; cl17255 574087004739 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 574087004740 substrate binding site [chemical binding]; other site 574087004741 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 574087004742 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 574087004743 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 574087004744 catalytic site [active] 574087004745 subunit interface [polypeptide binding]; other site 574087004746 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 574087004747 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 574087004748 Na binding site [ion binding]; other site 574087004749 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 574087004750 Predicted membrane protein [Function unknown]; Region: COG2323 574087004751 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 574087004752 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 574087004753 active site 574087004754 dimer interface [polypeptide binding]; other site 574087004755 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 574087004756 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 574087004757 metal binding site [ion binding]; metal-binding site 574087004758 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 574087004759 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 574087004760 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 574087004761 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 574087004762 ABC-ATPase subunit interface; other site 574087004763 dimer interface [polypeptide binding]; other site 574087004764 putative PBP binding regions; other site 574087004765 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 574087004766 Spore germination protein; Region: Spore_permease; cl17796 574087004767 Spore germination protein; Region: Spore_permease; cl17796 574087004768 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 574087004769 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 574087004770 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 574087004771 acetylornithine aminotransferase; Provisional; Region: PRK02627 574087004772 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 574087004773 inhibitor-cofactor binding pocket; inhibition site 574087004774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087004775 catalytic residue [active] 574087004776 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 574087004777 feedback inhibition sensing region; other site 574087004778 homohexameric interface [polypeptide binding]; other site 574087004779 nucleotide binding site [chemical binding]; other site 574087004780 N-acetyl-L-glutamate binding site [chemical binding]; other site 574087004781 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 574087004782 heterotetramer interface [polypeptide binding]; other site 574087004783 active site pocket [active] 574087004784 cleavage site 574087004785 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 574087004786 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 574087004787 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 574087004788 DNA-binding site [nucleotide binding]; DNA binding site 574087004789 RNA-binding motif; other site 574087004790 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 574087004791 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 574087004792 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 574087004793 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 574087004794 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 574087004795 ATP binding site [chemical binding]; other site 574087004796 putative Mg++ binding site [ion binding]; other site 574087004797 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 574087004798 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 574087004799 nucleotide binding region [chemical binding]; other site 574087004800 ATP-binding site [chemical binding]; other site 574087004801 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 574087004802 CAAX protease self-immunity; Region: Abi; pfam02517 574087004803 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 574087004804 Helix-turn-helix domain; Region: HTH_25; pfam13413 574087004805 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 574087004806 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 574087004807 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 574087004808 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 574087004809 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 574087004810 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087004811 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 574087004812 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 574087004813 DNA binding residues [nucleotide binding] 574087004814 Domain of unknown function (DUF378); Region: DUF378; pfam04070 574087004815 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087004816 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 574087004817 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087004818 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 574087004819 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 574087004820 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 574087004821 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 574087004822 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 574087004823 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 574087004824 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 574087004825 PhoU domain; Region: PhoU; pfam01895 574087004826 PhoU domain; Region: PhoU; pfam01895 574087004827 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 574087004828 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 574087004829 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 574087004830 YlzJ-like protein; Region: YlzJ; pfam14035 574087004831 Clp protease; Region: CLP_protease; pfam00574 574087004832 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 574087004833 active site 574087004834 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 574087004835 thiS-thiF/thiG interaction site; other site 574087004836 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 574087004837 ThiS interaction site; other site 574087004838 putative active site [active] 574087004839 tetramer interface [polypeptide binding]; other site 574087004840 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 574087004841 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 574087004842 FeS/SAM binding site; other site 574087004843 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 574087004844 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 574087004845 thiamine phosphate binding site [chemical binding]; other site 574087004846 active site 574087004847 pyrophosphate binding site [ion binding]; other site 574087004848 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 574087004849 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 574087004850 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 574087004851 dihydrodipicolinate synthase; Region: dapA; TIGR00674 574087004852 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 574087004853 dimer interface [polypeptide binding]; other site 574087004854 active site 574087004855 catalytic residue [active] 574087004856 aspartate kinase I; Reviewed; Region: PRK08210 574087004857 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 574087004858 nucleotide binding site [chemical binding]; other site 574087004859 substrate binding site [chemical binding]; other site 574087004860 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 574087004861 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 574087004862 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 574087004863 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 574087004864 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 574087004865 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 574087004866 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 574087004867 dihydrodipicolinate reductase; Provisional; Region: PRK00048 574087004868 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 574087004869 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 574087004870 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 574087004871 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 574087004872 trimer interface [polypeptide binding]; other site 574087004873 active site 574087004874 VanW like protein; Region: VanW; pfam04294 574087004875 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 574087004876 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 574087004877 NodB motif; other site 574087004878 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 574087004879 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 574087004880 NodB motif; other site 574087004881 active site 574087004882 catalytic site [active] 574087004883 metal binding site [ion binding]; metal-binding site 574087004884 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 574087004885 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 574087004886 active site 574087004887 metal binding site [ion binding]; metal-binding site 574087004888 Sporulation and spore germination; Region: Germane; pfam10646 574087004889 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087004890 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 574087004891 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087004892 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 574087004893 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 574087004894 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 574087004895 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 574087004896 putative Mg++ binding site [ion binding]; other site 574087004897 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 574087004898 endonuclease IV; Provisional; Region: PRK01060 574087004899 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 574087004900 AP (apurinic/apyrimidinic) site pocket; other site 574087004901 DNA interaction; other site 574087004902 Metal-binding active site; metal-binding site 574087004903 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 574087004904 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 574087004905 RNase E interface [polypeptide binding]; other site 574087004906 trimer interface [polypeptide binding]; other site 574087004907 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 574087004908 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 574087004909 RNase E interface [polypeptide binding]; other site 574087004910 trimer interface [polypeptide binding]; other site 574087004911 active site 574087004912 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 574087004913 putative nucleic acid binding region [nucleotide binding]; other site 574087004914 G-X-X-G motif; other site 574087004915 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 574087004916 RNA binding site [nucleotide binding]; other site 574087004917 domain interface; other site 574087004918 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 574087004919 16S/18S rRNA binding site [nucleotide binding]; other site 574087004920 S13e-L30e interaction site [polypeptide binding]; other site 574087004921 25S rRNA binding site [nucleotide binding]; other site 574087004922 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 574087004923 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 574087004924 active site 574087004925 Riboflavin kinase; Region: Flavokinase; pfam01687 574087004926 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 574087004927 DHH family; Region: DHH; pfam01368 574087004928 DHHA1 domain; Region: DHHA1; pfam02272 574087004929 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 574087004930 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 574087004931 translation initiation factor IF-2; Region: IF-2; TIGR00487 574087004932 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 574087004933 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 574087004934 G1 box; other site 574087004935 putative GEF interaction site [polypeptide binding]; other site 574087004936 GTP/Mg2+ binding site [chemical binding]; other site 574087004937 Switch I region; other site 574087004938 G2 box; other site 574087004939 G3 box; other site 574087004940 Switch II region; other site 574087004941 G4 box; other site 574087004942 G5 box; other site 574087004943 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 574087004944 Translation-initiation factor 2; Region: IF-2; pfam11987 574087004945 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 574087004946 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 574087004947 NusA N-terminal domain; Region: NusA_N; pfam08529 574087004948 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 574087004949 RNA binding site [nucleotide binding]; other site 574087004950 homodimer interface [polypeptide binding]; other site 574087004951 NusA-like KH domain; Region: KH_5; pfam13184 574087004952 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 574087004953 G-X-X-G motif; other site 574087004954 ribosome maturation protein RimP; Reviewed; Region: PRK00092 574087004955 Sm and related proteins; Region: Sm_like; cl00259 574087004956 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 574087004957 putative oligomer interface [polypeptide binding]; other site 574087004958 putative RNA binding site [nucleotide binding]; other site 574087004959 DNA polymerase III PolC; Validated; Region: polC; PRK00448 574087004960 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 574087004961 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 574087004962 generic binding surface II; other site 574087004963 generic binding surface I; other site 574087004964 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 574087004965 active site 574087004966 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 574087004967 active site 574087004968 catalytic site [active] 574087004969 substrate binding site [chemical binding]; other site 574087004970 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 574087004971 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 574087004972 MgtC family; Region: MgtC; pfam02308 574087004973 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 574087004974 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 574087004975 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 574087004976 Ligand binding site; other site 574087004977 Putative Catalytic site; other site 574087004978 DXD motif; other site 574087004979 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 574087004980 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 574087004981 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 574087004982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087004983 Zn2+ binding site [ion binding]; other site 574087004984 Mg2+ binding site [ion binding]; other site 574087004985 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 574087004986 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 574087004987 active site 574087004988 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 574087004989 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 574087004990 putative substrate binding region [chemical binding]; other site 574087004991 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 574087004992 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 574087004993 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 574087004994 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 574087004995 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 574087004996 Domain of unknown function DUF20; Region: UPF0118; pfam01594 574087004997 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 574087004998 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 574087004999 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 574087005000 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 574087005001 catalytic residue [active] 574087005002 putative FPP diphosphate binding site; other site 574087005003 putative FPP binding hydrophobic cleft; other site 574087005004 dimer interface [polypeptide binding]; other site 574087005005 putative IPP diphosphate binding site; other site 574087005006 ribosome recycling factor; Reviewed; Region: frr; PRK00083 574087005007 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 574087005008 hinge region; other site 574087005009 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 574087005010 putative nucleotide binding site [chemical binding]; other site 574087005011 uridine monophosphate binding site [chemical binding]; other site 574087005012 homohexameric interface [polypeptide binding]; other site 574087005013 elongation factor Ts; Reviewed; Region: tsf; PRK12332 574087005014 UBA/TS-N domain; Region: UBA; pfam00627 574087005015 Elongation factor TS; Region: EF_TS; pfam00889 574087005016 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 574087005017 rRNA interaction site [nucleotide binding]; other site 574087005018 S8 interaction site; other site 574087005019 putative laminin-1 binding site; other site 574087005020 YceG-like family; Region: YceG; pfam02618 574087005021 Protein of unknown function (DUF342); Region: DUF342; pfam03961 574087005022 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 574087005023 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087005024 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 574087005025 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 574087005026 DNA binding residues [nucleotide binding] 574087005027 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 574087005028 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 574087005029 CheC-like family; Region: CheC; pfam04509 574087005030 Chemotaxis phosphatase CheX; Region: CheX; cl15816 574087005031 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 574087005032 Flagellar protein YcgR; Region: YcgR_2; pfam12945 574087005033 PilZ domain; Region: PilZ; pfam07238 574087005034 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 574087005035 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 574087005036 P-loop; other site 574087005037 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 574087005038 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 574087005039 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 574087005040 FHIPEP family; Region: FHIPEP; pfam00771 574087005041 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 574087005042 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 574087005043 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 574087005044 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 574087005045 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 574087005046 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 574087005047 flagellar motor switch protein; Validated; Region: PRK08119 574087005048 CheC-like family; Region: CheC; pfam04509 574087005049 CheC-like family; Region: CheC; pfam04509 574087005050 flagellar motor switch protein FliN; Region: fliN; TIGR02480 574087005051 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 574087005052 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 574087005053 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 574087005054 flagellar motor protein MotS; Reviewed; Region: PRK06925 574087005055 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 574087005056 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 574087005057 ligand binding site [chemical binding]; other site 574087005058 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 574087005059 Flagellar protein (FlbD); Region: FlbD; pfam06289 574087005060 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 574087005061 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 574087005062 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 574087005063 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 574087005064 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 574087005065 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 574087005066 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 574087005067 Uncharacterized conserved protein [Function unknown]; Region: COG3334 574087005068 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 574087005069 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 574087005070 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 574087005071 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 574087005072 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 574087005073 Walker A motif/ATP binding site; other site 574087005074 Walker B motif; other site 574087005075 Flagellar assembly protein FliH; Region: FliH; pfam02108 574087005076 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 574087005077 FliG C-terminal domain; Region: FliG_C; pfam01706 574087005078 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 574087005079 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 574087005080 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 574087005081 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 574087005082 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 574087005083 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 574087005084 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 574087005085 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 574087005086 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 574087005087 transcriptional repressor CodY; Validated; Region: PRK04158 574087005088 CodY GAF-like domain; Region: CodY; pfam06018 574087005089 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 574087005090 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 574087005091 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 574087005092 Walker A motif; other site 574087005093 ATP binding site [chemical binding]; other site 574087005094 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 574087005095 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 574087005096 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 574087005097 active site 574087005098 HslU subunit interaction site [polypeptide binding]; other site 574087005099 DNA topoisomerase I; Validated; Region: PRK05582 574087005100 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 574087005101 active site 574087005102 interdomain interaction site; other site 574087005103 putative metal-binding site [ion binding]; other site 574087005104 nucleotide binding site [chemical binding]; other site 574087005105 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 574087005106 domain I; other site 574087005107 DNA binding groove [nucleotide binding] 574087005108 phosphate binding site [ion binding]; other site 574087005109 domain II; other site 574087005110 domain III; other site 574087005111 nucleotide binding site [chemical binding]; other site 574087005112 catalytic site [active] 574087005113 domain IV; other site 574087005114 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 574087005115 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 574087005116 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 574087005117 DNA protecting protein DprA; Region: dprA; TIGR00732 574087005118 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 574087005119 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 574087005120 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 574087005121 Walker A motif; other site 574087005122 ATP binding site [chemical binding]; other site 574087005123 Walker B motif; other site 574087005124 arginine finger; other site 574087005125 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 574087005126 hypothetical protein; Reviewed; Region: PRK12497 574087005127 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 574087005128 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 574087005129 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 574087005130 RNA/DNA hybrid binding site [nucleotide binding]; other site 574087005131 active site 574087005132 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 574087005133 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 574087005134 Catalytic site [active] 574087005135 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 574087005136 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 574087005137 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 574087005138 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 574087005139 RimM N-terminal domain; Region: RimM; pfam01782 574087005140 PRC-barrel domain; Region: PRC; pfam05239 574087005141 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 574087005142 hypothetical protein; Provisional; Region: PRK00468 574087005143 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 574087005144 signal recognition particle protein; Provisional; Region: PRK10867 574087005145 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 574087005146 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 574087005147 P loop; other site 574087005148 GTP binding site [chemical binding]; other site 574087005149 Signal peptide binding domain; Region: SRP_SPB; pfam02978 574087005150 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 574087005151 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 574087005152 DNA binding residues [nucleotide binding] 574087005153 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 574087005154 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 574087005155 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 574087005156 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 574087005157 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 574087005158 Walker A/P-loop; other site 574087005159 ATP binding site [chemical binding]; other site 574087005160 Q-loop/lid; other site 574087005161 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 574087005162 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 574087005163 ABC transporter signature motif; other site 574087005164 Walker B; other site 574087005165 D-loop; other site 574087005166 H-loop/switch region; other site 574087005167 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 574087005168 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 574087005169 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 574087005170 FeS/SAM binding site; other site 574087005171 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 574087005172 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 574087005173 RNA binding surface [nucleotide binding]; other site 574087005174 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 574087005175 active site 574087005176 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 574087005177 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 574087005178 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 574087005179 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 574087005180 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 574087005181 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 574087005182 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 574087005183 4Fe-4S binding domain; Region: Fer4_6; pfam12837 574087005184 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 574087005185 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 574087005186 FAD binding pocket [chemical binding]; other site 574087005187 FAD binding motif [chemical binding]; other site 574087005188 phosphate binding motif [ion binding]; other site 574087005189 beta-alpha-beta structure motif; other site 574087005190 NAD binding pocket [chemical binding]; other site 574087005191 Iron coordination center [ion binding]; other site 574087005192 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 574087005193 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 574087005194 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 574087005195 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 574087005196 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 574087005197 active site 574087005198 HIGH motif; other site 574087005199 dimer interface [polypeptide binding]; other site 574087005200 KMSKS motif; other site 574087005201 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 574087005202 Peptidase family M50; Region: Peptidase_M50; pfam02163 574087005203 active site 574087005204 putative substrate binding region [chemical binding]; other site 574087005205 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 574087005206 DHH family; Region: DHH; pfam01368 574087005207 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 574087005208 FOG: CBS domain [General function prediction only]; Region: COG0517 574087005209 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 574087005210 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 574087005211 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 574087005212 active site 574087005213 NTP binding site [chemical binding]; other site 574087005214 metal binding triad [ion binding]; metal-binding site 574087005215 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 574087005216 diaminopimelate decarboxylase; Region: lysA; TIGR01048 574087005217 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 574087005218 active site 574087005219 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 574087005220 substrate binding site [chemical binding]; other site 574087005221 catalytic residues [active] 574087005222 dimer interface [polypeptide binding]; other site 574087005223 Acylphosphatase; Region: Acylphosphatase; pfam00708 574087005224 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 574087005225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 574087005226 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 574087005227 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 574087005228 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 574087005229 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 574087005230 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 574087005231 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 574087005232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 574087005233 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 574087005234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 574087005235 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 574087005236 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 574087005237 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 574087005238 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 574087005239 stage V sporulation protein AD; Validated; Region: PRK08304 574087005240 stage V sporulation protein AD; Provisional; Region: PRK12404 574087005241 SpoVA protein; Region: SpoVA; cl04298 574087005242 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 574087005243 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574087005244 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 574087005245 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 574087005246 DNA binding residues [nucleotide binding] 574087005247 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 574087005248 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087005249 ATP binding site [chemical binding]; other site 574087005250 Mg2+ binding site [ion binding]; other site 574087005251 G-X-G motif; other site 574087005252 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 574087005253 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 574087005254 anti sigma factor interaction site; other site 574087005255 regulatory phosphorylation site [posttranslational modification]; other site 574087005256 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 574087005257 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 574087005258 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 574087005259 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 574087005260 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 574087005261 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 574087005262 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 574087005263 purine nucleoside phosphorylase; Provisional; Region: PRK08202 574087005264 phosphopentomutase; Provisional; Region: PRK05362 574087005265 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 574087005266 Integral membrane protein DUF95; Region: DUF95; cl00572 574087005267 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 574087005268 dimer interface [polypeptide binding]; other site 574087005269 ADP-ribose binding site [chemical binding]; other site 574087005270 active site 574087005271 nudix motif; other site 574087005272 metal binding site [ion binding]; metal-binding site 574087005273 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 574087005274 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 574087005275 peptidase T-like protein; Region: PepT-like; TIGR01883 574087005276 metal binding site [ion binding]; metal-binding site 574087005277 putative dimer interface [polypeptide binding]; other site 574087005278 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 574087005279 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 574087005280 dimer interface [polypeptide binding]; other site 574087005281 active site 574087005282 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 574087005283 substrate binding site [chemical binding]; other site 574087005284 catalytic residue [active] 574087005285 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 574087005286 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 574087005287 B12 binding site [chemical binding]; other site 574087005288 cobalt ligand [ion binding]; other site 574087005289 Monomethylamine methyltransferase MtmB; Region: MtmB; pfam05369 574087005290 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 574087005291 Na2 binding site [ion binding]; other site 574087005292 putative substrate binding site 1 [chemical binding]; other site 574087005293 Na binding site 1 [ion binding]; other site 574087005294 putative substrate binding site 2 [chemical binding]; other site 574087005295 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 574087005296 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 574087005297 Ligand binding site; other site 574087005298 Putative Catalytic site; other site 574087005299 DXD motif; other site 574087005300 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 574087005301 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 574087005302 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 574087005303 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 574087005304 CoA binding domain; Region: CoA_binding; pfam02629 574087005305 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 574087005306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087005307 active site 574087005308 phosphorylation site [posttranslational modification] 574087005309 intermolecular recognition site; other site 574087005310 dimerization interface [polypeptide binding]; other site 574087005311 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 574087005312 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 574087005313 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 574087005314 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 574087005315 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 574087005316 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 574087005317 Walker A/P-loop; other site 574087005318 ATP binding site [chemical binding]; other site 574087005319 Q-loop/lid; other site 574087005320 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 574087005321 ABC transporter signature motif; other site 574087005322 Walker B; other site 574087005323 D-loop; other site 574087005324 H-loop/switch region; other site 574087005325 Arginine repressor [Transcription]; Region: ArgR; COG1438 574087005326 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 574087005327 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 574087005328 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 574087005329 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 574087005330 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 574087005331 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 574087005332 RNA binding surface [nucleotide binding]; other site 574087005333 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 574087005334 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 574087005335 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 574087005336 TPP-binding site; other site 574087005337 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 574087005338 PYR/PP interface [polypeptide binding]; other site 574087005339 dimer interface [polypeptide binding]; other site 574087005340 TPP binding site [chemical binding]; other site 574087005341 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 574087005342 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 574087005343 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 574087005344 substrate binding pocket [chemical binding]; other site 574087005345 chain length determination region; other site 574087005346 substrate-Mg2+ binding site; other site 574087005347 catalytic residues [active] 574087005348 aspartate-rich region 1; other site 574087005349 active site lid residues [active] 574087005350 aspartate-rich region 2; other site 574087005351 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 574087005352 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 574087005353 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 574087005354 generic binding surface II; other site 574087005355 generic binding surface I; other site 574087005356 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 574087005357 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 574087005358 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 574087005359 homodimer interface [polypeptide binding]; other site 574087005360 NADP binding site [chemical binding]; other site 574087005361 substrate binding site [chemical binding]; other site 574087005362 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 574087005363 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 574087005364 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 574087005365 putative RNA binding site [nucleotide binding]; other site 574087005366 Asp23 family; Region: Asp23; pfam03780 574087005367 Asp23 family; Region: Asp23; pfam03780 574087005368 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 574087005369 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 574087005370 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 574087005371 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 574087005372 pyruvate carboxylase subunit B; Validated; Region: PRK09282 574087005373 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 574087005374 active site 574087005375 catalytic residues [active] 574087005376 metal binding site [ion binding]; metal-binding site 574087005377 homodimer binding site [polypeptide binding]; other site 574087005378 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 574087005379 carboxyltransferase (CT) interaction site; other site 574087005380 biotinylation site [posttranslational modification]; other site 574087005381 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 574087005382 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 574087005383 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 574087005384 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 574087005385 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 574087005386 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 574087005387 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; pfam09548 574087005388 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 574087005389 NTPase; Region: NTPase_1; cl17478 574087005390 elongation factor P; Validated; Region: PRK00529 574087005391 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 574087005392 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 574087005393 RNA binding site [nucleotide binding]; other site 574087005394 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 574087005395 RNA binding site [nucleotide binding]; other site 574087005396 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 574087005397 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 574087005398 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 574087005399 active site 574087005400 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 574087005401 Dehydroquinase class II; Region: DHquinase_II; pfam01220 574087005402 trimer interface [polypeptide binding]; other site 574087005403 active site 574087005404 dimer interface [polypeptide binding]; other site 574087005405 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 574087005406 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 574087005407 active site 574087005408 dimer interface [polypeptide binding]; other site 574087005409 metal binding site [ion binding]; metal-binding site 574087005410 shikimate kinase; Reviewed; Region: aroK; PRK00131 574087005411 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 574087005412 ADP binding site [chemical binding]; other site 574087005413 magnesium binding site [ion binding]; other site 574087005414 putative shikimate binding site; other site 574087005415 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 574087005416 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 574087005417 Tetramer interface [polypeptide binding]; other site 574087005418 active site 574087005419 FMN-binding site [chemical binding]; other site 574087005420 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 574087005421 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 574087005422 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 574087005423 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 574087005424 Pilus assembly protein, PilO; Region: PilO; cl01234 574087005425 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 574087005426 Cell division protein FtsA; Region: FtsA; cl17206 574087005427 Competence protein A; Region: Competence_A; pfam11104 574087005428 Cell division protein FtsA; Region: FtsA; pfam14450 574087005429 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 574087005430 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 574087005431 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 574087005432 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 574087005433 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 574087005434 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 574087005435 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 574087005436 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 574087005437 O-Antigen ligase; Region: Wzy_C; pfam04932 574087005438 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 574087005439 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 574087005440 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 574087005441 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 574087005442 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 574087005443 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 574087005444 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 574087005445 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 574087005446 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 574087005447 Walker A motif; other site 574087005448 ATP binding site [chemical binding]; other site 574087005449 Walker B motif; other site 574087005450 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 574087005451 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 574087005452 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 574087005453 Walker A motif; other site 574087005454 ATP binding site [chemical binding]; other site 574087005455 Walker B motif; other site 574087005456 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 574087005457 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 574087005458 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 574087005459 shikimate binding site; other site 574087005460 NAD(P) binding site [chemical binding]; other site 574087005461 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 574087005462 EamA-like transporter family; Region: EamA; pfam00892 574087005463 EamA-like transporter family; Region: EamA; pfam00892 574087005464 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 574087005465 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 574087005466 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 574087005467 G1 box; other site 574087005468 GTP/Mg2+ binding site [chemical binding]; other site 574087005469 Switch I region; other site 574087005470 G2 box; other site 574087005471 G3 box; other site 574087005472 Switch II region; other site 574087005473 G4 box; other site 574087005474 G5 box; other site 574087005475 Nucleoside recognition; Region: Gate; pfam07670 574087005476 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 574087005477 Nucleoside recognition; Region: Gate; pfam07670 574087005478 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 574087005479 metal binding site 2 [ion binding]; metal-binding site 574087005480 putative DNA binding helix; other site 574087005481 metal binding site 1 [ion binding]; metal-binding site 574087005482 dimer interface [polypeptide binding]; other site 574087005483 structural Zn2+ binding site [ion binding]; other site 574087005484 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 574087005485 catalytic center binding site [active] 574087005486 ATP binding site [chemical binding]; other site 574087005487 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 574087005488 homooctamer interface [polypeptide binding]; other site 574087005489 active site 574087005490 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 574087005491 dihydropteroate synthase; Region: DHPS; TIGR01496 574087005492 substrate binding pocket [chemical binding]; other site 574087005493 dimer interface [polypeptide binding]; other site 574087005494 inhibitor binding site; inhibition site 574087005495 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087005496 Zn2+ binding site [ion binding]; other site 574087005497 Mg2+ binding site [ion binding]; other site 574087005498 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 574087005499 nickel binding site [ion binding]; other site 574087005500 Protein of unknown function DUF111; Region: DUF111; cl03398 574087005501 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 574087005502 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 574087005503 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 574087005504 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 574087005505 acyl-activating enzyme (AAE) consensus motif; other site 574087005506 AMP binding site [chemical binding]; other site 574087005507 active site 574087005508 CoA binding site [chemical binding]; other site 574087005509 ACT domain-containing protein [General function prediction only]; Region: COG4747 574087005510 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 574087005511 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 574087005512 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 574087005513 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 574087005514 DNA binding residues [nucleotide binding] 574087005515 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 574087005516 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 574087005517 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 574087005518 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 574087005519 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 574087005520 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 574087005521 P loop nucleotide binding; other site 574087005522 switch II; other site 574087005523 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 574087005524 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 574087005525 P loop nucleotide binding; other site 574087005526 switch II; other site 574087005527 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 574087005528 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 574087005529 metal binding site 2 [ion binding]; metal-binding site 574087005530 putative DNA binding helix; other site 574087005531 metal binding site 1 [ion binding]; metal-binding site 574087005532 dimer interface [polypeptide binding]; other site 574087005533 structural Zn2+ binding site [ion binding]; other site 574087005534 Transcriptional regulators [Transcription]; Region: FadR; COG2186 574087005535 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 574087005536 DNA-binding site [nucleotide binding]; DNA binding site 574087005537 FCD domain; Region: FCD; pfam07729 574087005538 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 574087005539 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 574087005540 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 574087005541 Cysteine-rich domain; Region: CCG; pfam02754 574087005542 Cysteine-rich domain; Region: CCG; pfam02754 574087005543 FAD binding domain; Region: FAD_binding_4; pfam01565 574087005544 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 574087005545 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 574087005546 L-lactate permease; Region: Lactate_perm; cl00701 574087005547 Transcriptional regulators [Transcription]; Region: FadR; COG2186 574087005548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 574087005549 DNA-binding site [nucleotide binding]; DNA binding site 574087005550 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 574087005551 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 574087005552 FAD binding domain; Region: FAD_binding_4; pfam01565 574087005553 4Fe-4S binding domain; Region: Fer4; pfam00037 574087005554 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087005555 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 574087005556 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 574087005557 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 574087005558 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 574087005559 Ligand binding site [chemical binding]; other site 574087005560 Electron transfer flavoprotein domain; Region: ETF; pfam01012 574087005561 Sporulation and spore germination; Region: Germane; pfam10646 574087005562 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 574087005563 AMIN domain; Region: AMIN; pfam11741 574087005564 AMIN domain; Region: AMIN; pfam11741 574087005565 AMIN domain; Region: AMIN; pfam11741 574087005566 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 574087005567 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 574087005568 active site 574087005569 metal binding site [ion binding]; metal-binding site 574087005570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 574087005571 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087005572 ATP binding site [chemical binding]; other site 574087005573 Mg2+ binding site [ion binding]; other site 574087005574 G-X-G motif; other site 574087005575 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 574087005576 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 574087005577 active site 574087005578 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 574087005579 DRTGG domain; Region: DRTGG; pfam07085 574087005580 FOG: CBS domain [General function prediction only]; Region: COG0517 574087005581 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 574087005582 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 574087005583 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 574087005584 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087005585 ATP binding site [chemical binding]; other site 574087005586 Mg2+ binding site [ion binding]; other site 574087005587 G-X-G motif; other site 574087005588 DRTGG domain; Region: DRTGG; pfam07085 574087005589 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 574087005590 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 574087005591 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087005592 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087005593 Peptidase family M23; Region: Peptidase_M23; pfam01551 574087005594 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 574087005595 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 574087005596 active site 574087005597 dimer interface [polypeptide binding]; other site 574087005598 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 574087005599 dimer interface [polypeptide binding]; other site 574087005600 active site 574087005601 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 574087005602 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 574087005603 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 574087005604 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 574087005605 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 574087005606 active site 574087005607 Zn binding site [ion binding]; other site 574087005608 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 574087005609 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 574087005610 putative subunit interface; other site 574087005611 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 574087005612 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 574087005613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574087005614 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 574087005615 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 574087005616 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 574087005617 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 574087005618 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 574087005619 active site 574087005620 FMN binding site [chemical binding]; other site 574087005621 substrate binding site [chemical binding]; other site 574087005622 3Fe-4S cluster binding site [ion binding]; other site 574087005623 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 574087005624 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 574087005625 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 574087005626 putative active site [active] 574087005627 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 574087005628 Nitrogen regulatory protein P-II; Region: P-II; smart00938 574087005629 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 574087005630 glutamine synthetase, type I; Region: GlnA; TIGR00653 574087005631 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 574087005632 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 574087005633 NAD synthetase; Provisional; Region: PRK13980 574087005634 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 574087005635 homodimer interface [polypeptide binding]; other site 574087005636 NAD binding pocket [chemical binding]; other site 574087005637 ATP binding pocket [chemical binding]; other site 574087005638 Mg binding site [ion binding]; other site 574087005639 active-site loop [active] 574087005640 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 574087005641 active site 574087005642 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 574087005643 dimer interface [polypeptide binding]; other site 574087005644 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 574087005645 Ligand Binding Site [chemical binding]; other site 574087005646 Molecular Tunnel; other site 574087005647 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 574087005648 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 574087005649 putative ligand binding site [chemical binding]; other site 574087005650 putative NAD binding site [chemical binding]; other site 574087005651 catalytic site [active] 574087005652 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 574087005653 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 574087005654 active site 574087005655 FOG: CBS domain [General function prediction only]; Region: COG0517 574087005656 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 574087005657 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 574087005658 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087005659 putative active site [active] 574087005660 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087005661 putative active site [active] 574087005662 heme pocket [chemical binding]; other site 574087005663 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 574087005664 Walker A motif; other site 574087005665 ATP binding site [chemical binding]; other site 574087005666 Walker B motif; other site 574087005667 arginine finger; other site 574087005668 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 574087005669 putative acyltransferase; Provisional; Region: PRK05790 574087005670 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 574087005671 dimer interface [polypeptide binding]; other site 574087005672 active site 574087005673 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 574087005674 Coenzyme A transferase; Region: CoA_trans; cl17247 574087005675 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 574087005676 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 574087005677 catalytic residue [active] 574087005678 putative FPP diphosphate binding site; other site 574087005679 putative FPP binding hydrophobic cleft; other site 574087005680 dimer interface [polypeptide binding]; other site 574087005681 putative IPP diphosphate binding site; other site 574087005682 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 574087005683 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 574087005684 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087005685 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 574087005686 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 574087005687 Cache domain; Region: Cache_1; pfam02743 574087005688 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 574087005689 dimerization interface [polypeptide binding]; other site 574087005690 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 574087005691 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087005692 dimer interface [polypeptide binding]; other site 574087005693 putative CheW interface [polypeptide binding]; other site 574087005694 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 574087005695 PAS domain S-box; Region: sensory_box; TIGR00229 574087005696 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087005697 putative active site [active] 574087005698 heme pocket [chemical binding]; other site 574087005699 PAS domain S-box; Region: sensory_box; TIGR00229 574087005700 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087005701 putative active site [active] 574087005702 heme pocket [chemical binding]; other site 574087005703 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 574087005704 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087005705 Zn2+ binding site [ion binding]; other site 574087005706 Mg2+ binding site [ion binding]; other site 574087005707 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 574087005708 Bacterial transcriptional activator domain; Region: BTAD; smart01043 574087005709 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 574087005710 TPR motif; other site 574087005711 binding surface 574087005712 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 574087005713 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_12; cd13142 574087005714 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 574087005715 Protein export membrane protein; Region: SecD_SecF; cl14618 574087005716 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 574087005717 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 574087005718 HlyD family secretion protein; Region: HlyD_3; pfam13437 574087005719 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 574087005720 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 574087005721 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 574087005722 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 574087005723 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 574087005724 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 574087005725 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 574087005726 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 574087005727 aspartate aminotransferase; Provisional; Region: PRK06290 574087005728 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 574087005729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087005730 homodimer interface [polypeptide binding]; other site 574087005731 catalytic residue [active] 574087005732 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 574087005733 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 574087005734 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 574087005735 pyruvate kinase; Provisional; Region: PRK06354 574087005736 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 574087005737 domain interfaces; other site 574087005738 active site 574087005739 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 574087005740 6-phosphofructokinase; Provisional; Region: PRK03202 574087005741 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 574087005742 active site 574087005743 ADP/pyrophosphate binding site [chemical binding]; other site 574087005744 dimerization interface [polypeptide binding]; other site 574087005745 allosteric effector site; other site 574087005746 fructose-1,6-bisphosphate binding site; other site 574087005747 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 574087005748 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 574087005749 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 574087005750 Na binding site [ion binding]; other site 574087005751 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 574087005752 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 574087005753 substrate binding site [chemical binding]; other site 574087005754 active site 574087005755 catalytic residues [active] 574087005756 heterodimer interface [polypeptide binding]; other site 574087005757 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 574087005758 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 574087005759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087005760 catalytic residue [active] 574087005761 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 574087005762 active site 574087005763 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 574087005764 active site 574087005765 ribulose/triose binding site [chemical binding]; other site 574087005766 phosphate binding site [ion binding]; other site 574087005767 substrate (anthranilate) binding pocket [chemical binding]; other site 574087005768 product (indole) binding pocket [chemical binding]; other site 574087005769 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 574087005770 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 574087005771 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 574087005772 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 574087005773 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 574087005774 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 574087005775 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 574087005776 transcription attenuation protein MtrB; Provisional; Region: PRK13251 574087005777 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 574087005778 putative trimer interface [polypeptide binding]; other site 574087005779 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 574087005780 putative CoA binding site [chemical binding]; other site 574087005781 putative trimer interface [polypeptide binding]; other site 574087005782 putative CoA binding site [chemical binding]; other site 574087005783 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 574087005784 tetramer interfaces [polypeptide binding]; other site 574087005785 binuclear metal-binding site [ion binding]; other site 574087005786 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 574087005787 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 574087005788 active site 574087005789 PHP Thumb interface [polypeptide binding]; other site 574087005790 metal binding site [ion binding]; metal-binding site 574087005791 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 574087005792 generic binding surface II; other site 574087005793 generic binding surface I; other site 574087005794 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 574087005795 aspartate aminotransferase; Provisional; Region: PRK05764 574087005796 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 574087005797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087005798 homodimer interface [polypeptide binding]; other site 574087005799 catalytic residue [active] 574087005800 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 574087005801 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 574087005802 G1 box; other site 574087005803 putative GEF interaction site [polypeptide binding]; other site 574087005804 GTP/Mg2+ binding site [chemical binding]; other site 574087005805 Switch I region; other site 574087005806 G2 box; other site 574087005807 G3 box; other site 574087005808 Switch II region; other site 574087005809 G4 box; other site 574087005810 G5 box; other site 574087005811 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 574087005812 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 574087005813 histidinol-phosphatase; Provisional; Region: PRK07328 574087005814 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 574087005815 active site 574087005816 dimer interface [polypeptide binding]; other site 574087005817 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 574087005818 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; pfam01184 574087005819 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 574087005820 catalytic loop [active] 574087005821 iron binding site [ion binding]; other site 574087005822 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 574087005823 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 574087005824 4Fe-4S binding domain; Region: Fer4; pfam00037 574087005825 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 574087005826 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 574087005827 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 574087005828 dimer interface [polypeptide binding]; other site 574087005829 [2Fe-2S] cluster binding site [ion binding]; other site 574087005830 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 574087005831 SLBB domain; Region: SLBB; pfam10531 574087005832 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 574087005833 4Fe-4S binding domain; Region: Fer4; pfam00037 574087005834 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 574087005835 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 574087005836 putative dimer interface [polypeptide binding]; other site 574087005837 [2Fe-2S] cluster binding site [ion binding]; other site 574087005838 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 574087005839 metal binding site 2 [ion binding]; metal-binding site 574087005840 putative DNA binding helix; other site 574087005841 metal binding site 1 [ion binding]; metal-binding site 574087005842 dimer interface [polypeptide binding]; other site 574087005843 structural Zn2+ binding site [ion binding]; other site 574087005844 NifU-like domain; Region: NifU; pfam01106 574087005845 AMP-binding domain protein; Validated; Region: PRK08315 574087005846 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 574087005847 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 574087005848 acyl-activating enzyme (AAE) consensus motif; other site 574087005849 acyl-activating enzyme (AAE) consensus motif; other site 574087005850 putative AMP binding site [chemical binding]; other site 574087005851 putative active site [active] 574087005852 putative CoA binding site [chemical binding]; other site 574087005853 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 574087005854 E-class dimer interface [polypeptide binding]; other site 574087005855 P-class dimer interface [polypeptide binding]; other site 574087005856 active site 574087005857 Cu2+ binding site [ion binding]; other site 574087005858 Zn2+ binding site [ion binding]; other site 574087005859 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 574087005860 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 574087005861 DNA-binding site [nucleotide binding]; DNA binding site 574087005862 RNA-binding motif; other site 574087005863 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 574087005864 DNA-binding site [nucleotide binding]; DNA binding site 574087005865 RNA-binding motif; other site 574087005866 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 574087005867 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 574087005868 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 574087005869 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 574087005870 dimer interface [polypeptide binding]; other site 574087005871 PYR/PP interface [polypeptide binding]; other site 574087005872 TPP binding site [chemical binding]; other site 574087005873 substrate binding site [chemical binding]; other site 574087005874 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 574087005875 TPP-binding site; other site 574087005876 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 574087005877 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 574087005878 active site 1 [active] 574087005879 dimer interface [polypeptide binding]; other site 574087005880 hexamer interface [polypeptide binding]; other site 574087005881 active site 2 [active] 574087005882 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 574087005883 Uncharacterized conserved protein [Function unknown]; Region: COG1683 574087005884 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 574087005885 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 574087005886 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 574087005887 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 574087005888 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 574087005889 inhibitor-cofactor binding pocket; inhibition site 574087005890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087005891 catalytic residue [active] 574087005892 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 574087005893 AAA domain; Region: AAA_26; pfam13500 574087005894 biotin synthase; Region: bioB; TIGR00433 574087005895 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 574087005896 FeS/SAM binding site; other site 574087005897 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 574087005898 epoxyqueuosine reductase; Region: TIGR00276 574087005899 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 574087005900 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 574087005901 4Fe-4S binding domain; Region: Fer4; pfam00037 574087005902 HEAT repeat; Region: HEAT; pfam02985 574087005903 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 574087005904 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 574087005905 active site 574087005906 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 574087005907 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 574087005908 P-loop; other site 574087005909 Magnesium ion binding site [ion binding]; other site 574087005910 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 574087005911 Magnesium ion binding site [ion binding]; other site 574087005912 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 574087005913 Probable transposase; Region: OrfB_IS605; pfam01385 574087005914 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087005915 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 574087005916 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 574087005917 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 574087005918 dimer interface [polypeptide binding]; other site 574087005919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087005920 ATP binding site [chemical binding]; other site 574087005921 Mg2+ binding site [ion binding]; other site 574087005922 G-X-G motif; other site 574087005923 peroxiredoxin; Provisional; Region: PRK13189 574087005924 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 574087005925 dimer interface [polypeptide binding]; other site 574087005926 decamer (pentamer of dimers) interface [polypeptide binding]; other site 574087005927 catalytic triad [active] 574087005928 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 574087005929 dimerization interface [polypeptide binding]; other site 574087005930 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 574087005931 dimer interface [polypeptide binding]; other site 574087005932 phosphorylation site [posttranslational modification] 574087005933 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087005934 ATP binding site [chemical binding]; other site 574087005935 Mg2+ binding site [ion binding]; other site 574087005936 G-X-G motif; other site 574087005937 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 574087005938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087005939 active site 574087005940 phosphorylation site [posttranslational modification] 574087005941 intermolecular recognition site; other site 574087005942 dimerization interface [polypeptide binding]; other site 574087005943 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 574087005944 DNA binding site [nucleotide binding] 574087005945 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 574087005946 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 574087005947 FtsX-like permease family; Region: FtsX; pfam02687 574087005948 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 574087005949 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 574087005950 Walker A/P-loop; other site 574087005951 ATP binding site [chemical binding]; other site 574087005952 Q-loop/lid; other site 574087005953 ABC transporter signature motif; other site 574087005954 Walker B; other site 574087005955 D-loop; other site 574087005956 H-loop/switch region; other site 574087005957 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 574087005958 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 574087005959 E3 interaction surface; other site 574087005960 lipoyl attachment site [posttranslational modification]; other site 574087005961 HlyD family secretion protein; Region: HlyD_3; pfam13437 574087005962 Outer membrane efflux protein; Region: OEP; pfam02321 574087005963 Outer membrane efflux protein; Region: OEP; pfam02321 574087005964 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 574087005965 MarR family; Region: MarR; pfam01047 574087005966 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 574087005967 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 574087005968 Dehydratase family; Region: ILVD_EDD; cl00340 574087005969 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 574087005970 oligomerization interface [polypeptide binding]; other site 574087005971 active site 574087005972 metal binding site [ion binding]; metal-binding site 574087005973 fructuronate transporter; Provisional; Region: PRK10034; cl15264 574087005974 GntP family permease; Region: GntP_permease; pfam02447 574087005975 Transcriptional regulators [Transcription]; Region: GntR; COG1802 574087005976 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 574087005977 DNA-binding site [nucleotide binding]; DNA binding site 574087005978 FCD domain; Region: FCD; pfam07729 574087005979 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 574087005980 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 574087005981 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 574087005982 Bacterial Ig-like domain; Region: Big_5; pfam13205 574087005983 Accessory gene regulator B; Region: AgrB; pfam04647 574087005984 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 574087005985 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 574087005986 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 574087005987 metal binding site [ion binding]; metal-binding site 574087005988 active site 574087005989 I-site; other site 574087005990 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 574087005991 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 574087005992 Zn2+ binding site [ion binding]; other site 574087005993 Mg2+ binding site [ion binding]; other site 574087005994 formimidoylglutamase; Provisional; Region: PRK13775 574087005995 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 574087005996 putative active site [active] 574087005997 putative metal binding site [ion binding]; other site 574087005998 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 574087005999 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 574087006000 metal binding site [ion binding]; metal-binding site 574087006001 dimer interface [polypeptide binding]; other site 574087006002 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 574087006003 active sites [active] 574087006004 tetramer interface [polypeptide binding]; other site 574087006005 Predicted membrane protein [Function unknown]; Region: COG1288 574087006006 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 574087006007 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 574087006008 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 574087006009 binding surface 574087006010 TPR motif; other site 574087006011 AAA ATPase domain; Region: AAA_16; pfam13191 574087006012 Predicted ATPase [General function prediction only]; Region: COG3899 574087006013 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 574087006014 binding surface 574087006015 TPR motif; other site 574087006016 imidazolonepropionase; Validated; Region: PRK09356 574087006017 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 574087006018 active site 574087006019 glutamate formiminotransferase; Region: FtcD; TIGR02024 574087006020 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 574087006021 Formiminotransferase domain; Region: FTCD; pfam02971 574087006022 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 574087006023 urocanate hydratase; Provisional; Region: PRK05414 574087006024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087006025 Probable transposase; Region: OrfB_IS605; pfam01385 574087006026 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087006027 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 574087006028 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 574087006029 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 574087006030 Spore germination protein; Region: Spore_permease; cl17796 574087006031 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 574087006032 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 574087006033 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 574087006034 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 574087006035 CysD dimerization site [polypeptide binding]; other site 574087006036 G1 box; other site 574087006037 putative GEF interaction site [polypeptide binding]; other site 574087006038 GTP/Mg2+ binding site [chemical binding]; other site 574087006039 Switch I region; other site 574087006040 G2 box; other site 574087006041 G3 box; other site 574087006042 Switch II region; other site 574087006043 G4 box; other site 574087006044 G5 box; other site 574087006045 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 574087006046 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 574087006047 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 574087006048 active site 574087006049 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 574087006050 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 574087006051 Active Sites [active] 574087006052 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 574087006053 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 574087006054 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 574087006055 CPxP motif; other site 574087006056 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 574087006057 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 574087006058 metal-binding site [ion binding] 574087006059 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 574087006060 Soluble P-type ATPase [General function prediction only]; Region: COG4087 574087006061 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 574087006062 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 574087006063 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 574087006064 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 574087006065 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 574087006066 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 574087006067 G1 box; other site 574087006068 GTP/Mg2+ binding site [chemical binding]; other site 574087006069 Switch I region; other site 574087006070 G2 box; other site 574087006071 G3 box; other site 574087006072 Switch II region; other site 574087006073 G4 box; other site 574087006074 G5 box; other site 574087006075 Nucleoside recognition; Region: Gate; pfam07670 574087006076 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 574087006077 Nucleoside recognition; Region: Gate; pfam07670 574087006078 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 574087006079 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 574087006080 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 574087006081 Ligand Binding Site [chemical binding]; other site 574087006082 Predicted transcriptional regulator [Transcription]; Region: COG1959 574087006083 Transcriptional regulator; Region: Rrf2; cl17282 574087006084 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 574087006085 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 574087006086 dimer interface [polypeptide binding]; other site 574087006087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087006088 catalytic residue [active] 574087006089 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 574087006090 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 574087006091 putative catalytic cysteine [active] 574087006092 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 574087006093 putative active site [active] 574087006094 metal binding site [ion binding]; metal-binding site 574087006095 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 574087006096 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 574087006097 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 574087006098 Probable transposase; Region: OrfB_IS605; pfam01385 574087006099 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087006100 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 574087006101 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 574087006102 L-aspartate oxidase; Provisional; Region: PRK06175 574087006103 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 574087006104 Ferredoxin [Energy production and conversion]; Region: COG1146 574087006105 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087006106 MOSC domain; Region: MOSC; pfam03473 574087006107 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 574087006108 Transposase IS200 like; Region: Y1_Tnp; pfam01797 574087006109 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 574087006110 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 574087006111 Mechanosensitive ion channel; Region: MS_channel; pfam00924 574087006112 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 574087006113 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 574087006114 DNA binding residues [nucleotide binding] 574087006115 dimer interface [polypeptide binding]; other site 574087006116 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 574087006117 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 574087006118 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 574087006119 dinuclear metal binding motif [ion binding]; other site 574087006120 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 574087006121 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087006122 dimer interface [polypeptide binding]; other site 574087006123 putative CheW interface [polypeptide binding]; other site 574087006124 Hemerythrin; Region: Hemerythrin; cd12107 574087006125 Fe binding site [ion binding]; other site 574087006126 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 574087006127 DNA-binding site [nucleotide binding]; DNA binding site 574087006128 RNA-binding motif; other site 574087006129 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 574087006130 active site 574087006131 catalytic residues [active] 574087006132 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cl09832 574087006133 Methyltransferase domain; Region: Methyltransf_12; pfam08242 574087006134 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 574087006135 isopentenyl-diphosphate delta-isomerase, type 2; Region: IPP_isom_2; TIGR02151 574087006136 active site 574087006137 FMN binding site [chemical binding]; other site 574087006138 substrate binding site [chemical binding]; other site 574087006139 3Fe-4S cluster binding site [ion binding]; other site 574087006140 Coat F domain; Region: Coat_F; pfam07875 574087006141 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 574087006142 active site 574087006143 catalytic residues [active] 574087006144 PAS domain S-box; Region: sensory_box; TIGR00229 574087006145 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087006146 putative active site [active] 574087006147 heme pocket [chemical binding]; other site 574087006148 PAS fold; Region: PAS_3; pfam08447 574087006149 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 574087006150 PAS domain S-box; Region: sensory_box; TIGR00229 574087006151 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 574087006152 putative active site [active] 574087006153 heme pocket [chemical binding]; other site 574087006154 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 574087006155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 574087006156 metal binding site [ion binding]; metal-binding site 574087006157 active site 574087006158 I-site; other site 574087006159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087006160 Probable transposase; Region: OrfB_IS605; pfam01385 574087006161 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087006162 Transposase IS200 like; Region: Y1_Tnp; pfam01797 574087006163 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 574087006164 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 574087006165 NodB motif; other site 574087006166 putative active site [active] 574087006167 putative catalytic site [active] 574087006168 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 574087006169 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 574087006170 ATP binding site [chemical binding]; other site 574087006171 Mg++ binding site [ion binding]; other site 574087006172 motif III; other site 574087006173 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 574087006174 nucleotide binding region [chemical binding]; other site 574087006175 ATP-binding site [chemical binding]; other site 574087006176 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 574087006177 RNA binding site [nucleotide binding]; other site 574087006178 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 574087006179 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 574087006180 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 574087006181 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 574087006182 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 574087006183 motif II; other site 574087006184 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 574087006185 Spore germination protein; Region: Spore_permease; cl17796 574087006186 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 574087006187 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 574087006188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 574087006189 Probable transposase; Region: OrfB_IS605; pfam01385 574087006190 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087006191 Transposase IS200 like; Region: Y1_Tnp; pfam01797 574087006192 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 574087006193 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 574087006194 putative NAD(P) binding site [chemical binding]; other site 574087006195 catalytic Zn binding site [ion binding]; other site 574087006196 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 574087006197 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 574087006198 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 574087006199 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 574087006200 putative active site [active] 574087006201 catalytic site [active] 574087006202 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 574087006203 putative active site [active] 574087006204 catalytic site [active] 574087006205 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 574087006206 putative FMN binding site [chemical binding]; other site 574087006207 BioY family; Region: BioY; pfam02632 574087006208 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 574087006209 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087006210 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 574087006211 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087006212 active site 574087006213 phosphorylation site [posttranslational modification] 574087006214 intermolecular recognition site; other site 574087006215 dimerization interface [polypeptide binding]; other site 574087006216 CheB methylesterase; Region: CheB_methylest; pfam01339 574087006217 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 574087006218 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 574087006219 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 574087006220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087006221 Walker A/P-loop; other site 574087006222 ATP binding site [chemical binding]; other site 574087006223 Q-loop/lid; other site 574087006224 ABC transporter signature motif; other site 574087006225 Walker B; other site 574087006226 D-loop; other site 574087006227 H-loop/switch region; other site 574087006228 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 574087006229 Predicted permeases [General function prediction only]; Region: COG0701 574087006230 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 574087006231 dimerization interface [polypeptide binding]; other site 574087006232 putative DNA binding site [nucleotide binding]; other site 574087006233 putative Zn2+ binding site [ion binding]; other site 574087006234 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 574087006235 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 574087006236 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574087006237 catalytic residue [active] 574087006238 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 574087006239 dimerization interface [polypeptide binding]; other site 574087006240 putative DNA binding site [nucleotide binding]; other site 574087006241 putative Zn2+ binding site [ion binding]; other site 574087006242 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 574087006243 arsenical-resistance protein; Region: acr3; TIGR00832 574087006244 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 574087006245 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 574087006246 active site 574087006247 metal binding site [ion binding]; metal-binding site 574087006248 homotetramer interface [polypeptide binding]; other site 574087006249 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 574087006250 dimerization interface [polypeptide binding]; other site 574087006251 putative DNA binding site [nucleotide binding]; other site 574087006252 putative Zn2+ binding site [ion binding]; other site 574087006253 putative transposase OrfB; Reviewed; Region: PHA02517 574087006254 HTH-like domain; Region: HTH_21; pfam13276 574087006255 Integrase core domain; Region: rve; pfam00665 574087006256 Integrase core domain; Region: rve_3; pfam13683 574087006257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 574087006258 Transposase; Region: HTH_Tnp_1; pfam01527 574087006259 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 574087006260 dimerization interface [polypeptide binding]; other site 574087006261 putative DNA binding site [nucleotide binding]; other site 574087006262 putative Zn2+ binding site [ion binding]; other site 574087006263 Methyltransferase domain; Region: Methyltransf_31; pfam13847 574087006264 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 574087006265 S-adenosylmethionine binding site [chemical binding]; other site 574087006266 biotin synthase; Provisional; Region: PRK07094 574087006267 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 574087006268 FeS/SAM binding site; other site 574087006269 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 574087006270 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 574087006271 sequence-specific DNA binding site [nucleotide binding]; other site 574087006272 salt bridge; other site 574087006273 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 574087006274 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 574087006275 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 574087006276 substrate binding site [chemical binding]; other site 574087006277 multimerization interface [polypeptide binding]; other site 574087006278 ATP binding site [chemical binding]; other site 574087006279 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 574087006280 thiamine phosphate binding site [chemical binding]; other site 574087006281 active site 574087006282 pyrophosphate binding site [ion binding]; other site 574087006283 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 574087006284 dimer interface [polypeptide binding]; other site 574087006285 substrate binding site [chemical binding]; other site 574087006286 ATP binding site [chemical binding]; other site 574087006287 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 574087006288 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 574087006289 substrate binding site [chemical binding]; other site 574087006290 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 574087006291 substrate binding site [chemical binding]; other site 574087006292 ligand binding site [chemical binding]; other site 574087006293 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 574087006294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 574087006295 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574087006296 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 574087006297 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 574087006298 active site residue [active] 574087006299 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 574087006300 dimerization interface [polypeptide binding]; other site 574087006301 putative DNA binding site [nucleotide binding]; other site 574087006302 putative Zn2+ binding site [ion binding]; other site 574087006303 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 574087006304 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 574087006305 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 574087006306 S-adenosylmethionine binding site [chemical binding]; other site 574087006307 tartrate dehydrogenase; Region: TTC; TIGR02089 574087006308 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 574087006309 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 574087006310 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 574087006311 GatB domain; Region: GatB_Yqey; smart00845 574087006312 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 574087006313 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 574087006314 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 574087006315 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 574087006316 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 574087006317 nucleotide binding pocket [chemical binding]; other site 574087006318 K-X-D-G motif; other site 574087006319 catalytic site [active] 574087006320 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 574087006321 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 574087006322 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 574087006323 helix-hairpin-helix signature motif; other site 574087006324 active site 574087006325 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 574087006326 Dimer interface [polypeptide binding]; other site 574087006327 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 574087006328 Part of AAA domain; Region: AAA_19; pfam13245 574087006329 Family description; Region: UvrD_C_2; pfam13538 574087006330 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 574087006331 catalytic residues [active] 574087006332 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 574087006333 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 574087006334 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 574087006335 Protease prsW family; Region: PrsW-protease; pfam13367 574087006336 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 574087006337 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 574087006338 ligand-binding site [chemical binding]; other site 574087006339 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 574087006340 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 574087006341 ATP binding site [chemical binding]; other site 574087006342 substrate interface [chemical binding]; other site 574087006343 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 574087006344 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 574087006345 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 574087006346 dimer interface [polypeptide binding]; other site 574087006347 conserved gate region; other site 574087006348 ABC-ATPase subunit interface; other site 574087006349 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 574087006350 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 574087006351 Walker A/P-loop; other site 574087006352 ATP binding site [chemical binding]; other site 574087006353 Q-loop/lid; other site 574087006354 ABC transporter signature motif; other site 574087006355 Walker B; other site 574087006356 D-loop; other site 574087006357 H-loop/switch region; other site 574087006358 NIL domain; Region: NIL; pfam09383 574087006359 Domain of unknown function (DUF389); Region: DUF389; cl00781 574087006360 Trp repressor protein; Region: Trp_repressor; cl17266 574087006361 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 574087006362 MPT binding site; other site 574087006363 trimer interface [polypeptide binding]; other site 574087006364 molybdenum cofactor biosynthesis protein MoaC/MOSC-domain-containing protein; Provisional; Region: PRK14499 574087006365 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 574087006366 trimer interface [polypeptide binding]; other site 574087006367 dimer interface [polypeptide binding]; other site 574087006368 putative active site [active] 574087006369 MOSC domain; Region: MOSC; pfam03473 574087006370 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 574087006371 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 574087006372 FeS/SAM binding site; other site 574087006373 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 574087006374 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 574087006375 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 574087006376 dimer interface [polypeptide binding]; other site 574087006377 putative functional site; other site 574087006378 putative MPT binding site; other site 574087006379 PBP superfamily domain; Region: PBP_like; pfam12727 574087006380 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 574087006381 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 574087006382 dimer interface [polypeptide binding]; other site 574087006383 putative functional site; other site 574087006384 putative MPT binding site; other site 574087006385 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional; Region: PRK04338 574087006386 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 574087006387 GMP synthase; Reviewed; Region: guaA; PRK00074 574087006388 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 574087006389 AMP/PPi binding site [chemical binding]; other site 574087006390 candidate oxyanion hole; other site 574087006391 catalytic triad [active] 574087006392 potential glutamine specificity residues [chemical binding]; other site 574087006393 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 574087006394 ATP Binding subdomain [chemical binding]; other site 574087006395 Ligand Binding sites [chemical binding]; other site 574087006396 Dimerization subdomain; other site 574087006397 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 574087006398 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 574087006399 dimerization interface [polypeptide binding]; other site 574087006400 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 574087006401 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087006402 dimer interface [polypeptide binding]; other site 574087006403 putative CheW interface [polypeptide binding]; other site 574087006404 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 574087006405 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 574087006406 Spore germination protein; Region: Spore_permease; cl17796 574087006407 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 574087006408 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 574087006409 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 574087006410 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 574087006411 chaperonin GroL; Region: GroEL; TIGR02348 574087006412 ring oligomerisation interface [polypeptide binding]; other site 574087006413 ATP/Mg binding site [chemical binding]; other site 574087006414 stacking interactions; other site 574087006415 hinge regions; other site 574087006416 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 574087006417 oligomerisation interface [polypeptide binding]; other site 574087006418 mobile loop; other site 574087006419 roof hairpin; other site 574087006420 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 574087006421 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 574087006422 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 574087006423 Radical SAM superfamily; Region: Radical_SAM; pfam04055 574087006424 FeS/SAM binding site; other site 574087006425 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 574087006426 Protein of unknown function (DUF512); Region: DUF512; pfam04459 574087006427 UGMP family protein; Validated; Region: PRK09604 574087006428 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 574087006429 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 574087006430 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 574087006431 Coenzyme A binding pocket [chemical binding]; other site 574087006432 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 574087006433 Glycoprotease family; Region: Peptidase_M22; pfam00814 574087006434 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 574087006435 Predicted membrane protein [Function unknown]; Region: COG4684 574087006436 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 574087006437 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 574087006438 binding surface 574087006439 Tetratricopeptide repeat; Region: TPR_16; pfam13432 574087006440 TPR motif; other site 574087006441 Tetratricopeptide repeat; Region: TPR_16; pfam13432 574087006442 TPR repeat; Region: TPR_11; pfam13414 574087006443 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 574087006444 TPR motif; other site 574087006445 binding surface 574087006446 TPR repeat; Region: TPR_11; pfam13414 574087006447 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 574087006448 binding surface 574087006449 TPR motif; other site 574087006450 Tetratricopeptide repeat; Region: TPR_12; pfam13424 574087006451 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 574087006452 TPR motif; other site 574087006453 binding surface 574087006454 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 574087006455 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 574087006456 metal binding site [ion binding]; metal-binding site 574087006457 dimer interface [polypeptide binding]; other site 574087006458 PemK-like protein; Region: PemK; pfam02452 574087006459 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 574087006460 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 574087006461 RNA binding site [nucleotide binding]; other site 574087006462 DNA helicase, putative; Region: TIGR00376 574087006463 Part of AAA domain; Region: AAA_19; pfam13245 574087006464 AAA domain; Region: AAA_12; pfam13087 574087006465 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 574087006466 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 574087006467 conserved cys residue [active] 574087006468 FOG: CBS domain [General function prediction only]; Region: COG0517 574087006469 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 574087006470 Uncharacterized conserved protein [Function unknown]; Region: COG0062 574087006471 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 574087006472 putative substrate binding site [chemical binding]; other site 574087006473 putative ATP binding site [chemical binding]; other site 574087006474 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 574087006475 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 574087006476 HAMP domain; Region: HAMP; pfam00672 574087006477 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 574087006478 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 574087006479 dimer interface [polypeptide binding]; other site 574087006480 putative CheW interface [polypeptide binding]; other site 574087006481 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 574087006482 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 574087006483 putative active site [active] 574087006484 putative NTP binding site [chemical binding]; other site 574087006485 putative nucleic acid binding site [nucleotide binding]; other site 574087006486 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 574087006487 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 574087006488 glutaminase active site [active] 574087006489 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 574087006490 dimer interface [polypeptide binding]; other site 574087006491 active site 574087006492 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 574087006493 dimer interface [polypeptide binding]; other site 574087006494 active site 574087006495 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 574087006496 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 574087006497 active site 574087006498 substrate binding site [chemical binding]; other site 574087006499 metal binding site [ion binding]; metal-binding site 574087006500 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 574087006501 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 574087006502 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 574087006503 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 574087006504 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 574087006505 active site 574087006506 tetramer interface; other site 574087006507 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 574087006508 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 574087006509 non-specific DNA binding site [nucleotide binding]; other site 574087006510 salt bridge; other site 574087006511 sequence-specific DNA binding site [nucleotide binding]; other site 574087006512 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 574087006513 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 574087006514 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 574087006515 NAD(P) binding site [chemical binding]; other site 574087006516 homodimer interface [polypeptide binding]; other site 574087006517 substrate binding site [chemical binding]; other site 574087006518 active site 574087006519 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 574087006520 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 574087006521 inhibitor-cofactor binding pocket; inhibition site 574087006522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087006523 catalytic residue [active] 574087006524 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 574087006525 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 574087006526 putative trimer interface [polypeptide binding]; other site 574087006527 putative CoA binding site [chemical binding]; other site 574087006528 Bacterial sugar transferase; Region: Bac_transf; pfam02397 574087006529 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 574087006530 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 574087006531 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 574087006532 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 574087006533 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087006534 O-Antigen ligase; Region: Wzy_C; pfam04932 574087006535 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 574087006536 putative active site [active] 574087006537 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 574087006538 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 574087006539 active site 574087006540 Methyltransferase domain; Region: Methyltransf_23; pfam13489 574087006541 Methyltransferase domain; Region: Methyltransf_11; pfam08241 574087006542 colanic acid exporter; Provisional; Region: PRK10459 574087006543 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 574087006544 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 574087006545 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 574087006546 inhibitor-cofactor binding pocket; inhibition site 574087006547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087006548 catalytic residue [active] 574087006549 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 574087006550 putative trimer interface [polypeptide binding]; other site 574087006551 putative CoA binding site [chemical binding]; other site 574087006552 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 574087006553 putative trimer interface [polypeptide binding]; other site 574087006554 putative active site [active] 574087006555 putative substrate binding site [chemical binding]; other site 574087006556 putative CoA binding site [chemical binding]; other site 574087006557 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 574087006558 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 574087006559 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 574087006560 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 574087006561 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 574087006562 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 574087006563 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 574087006564 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 574087006565 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 574087006566 CysD dimerization site [polypeptide binding]; other site 574087006567 G1 box; other site 574087006568 putative GEF interaction site [polypeptide binding]; other site 574087006569 GTP/Mg2+ binding site [chemical binding]; other site 574087006570 Switch I region; other site 574087006571 G2 box; other site 574087006572 G3 box; other site 574087006573 Switch II region; other site 574087006574 G4 box; other site 574087006575 G5 box; other site 574087006576 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 574087006577 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 574087006578 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 574087006579 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 574087006580 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 574087006581 putative active site [active] 574087006582 putative NTP binding site [chemical binding]; other site 574087006583 putative nucleic acid binding site [nucleotide binding]; other site 574087006584 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 574087006585 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 574087006586 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 574087006587 Active Sites [active] 574087006588 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 574087006589 Bacterial sugar transferase; Region: Bac_transf; pfam02397 574087006590 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 574087006591 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 574087006592 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 574087006593 Chain length determinant protein; Region: Wzz; pfam02706 574087006594 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 574087006595 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 574087006596 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 574087006597 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 574087006598 SLBB domain; Region: SLBB; pfam10531 574087006599 SLBB domain; Region: SLBB; pfam10531 574087006600 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 574087006601 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 574087006602 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 574087006603 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 574087006604 active site 574087006605 substrate binding site [chemical binding]; other site 574087006606 metal binding site [ion binding]; metal-binding site 574087006607 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 574087006608 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 574087006609 Substrate binding site; other site 574087006610 Cupin domain; Region: Cupin_2; cl17218 574087006611 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 574087006612 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 574087006613 Ligand binding site; other site 574087006614 Putative Catalytic site; other site 574087006615 DXD motif; other site 574087006616 Predicted membrane protein [Function unknown]; Region: COG2246 574087006617 GtrA-like protein; Region: GtrA; pfam04138 574087006618 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; pfam04188 574087006619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 574087006620 Transposase; Region: HTH_Tnp_1; pfam01527 574087006621 putative transposase OrfB; Reviewed; Region: PHA02517 574087006622 HTH-like domain; Region: HTH_21; pfam13276 574087006623 Integrase core domain; Region: rve; pfam00665 574087006624 Integrase core domain; Region: rve_3; pfam13683 574087006625 O-Antigen ligase; Region: Wzy_C; pfam04932 574087006626 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 574087006627 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087006628 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 574087006629 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 574087006630 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 574087006631 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 574087006632 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 574087006633 NAD binding site [chemical binding]; other site 574087006634 homodimer interface [polypeptide binding]; other site 574087006635 active site 574087006636 substrate binding site [chemical binding]; other site 574087006637 Bacterial sugar transferase; Region: Bac_transf; pfam02397 574087006638 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 574087006639 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 574087006640 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 574087006641 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 574087006642 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087006643 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 574087006644 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087006645 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 574087006646 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 574087006647 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 574087006648 O-Antigen ligase; Region: Wzy_C; pfam04932 574087006649 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 574087006650 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 574087006651 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 574087006652 putative ADP-binding pocket [chemical binding]; other site 574087006653 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 574087006654 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 574087006655 putative metal binding site; other site 574087006656 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 574087006657 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 574087006658 putative active site [active] 574087006659 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 574087006660 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 574087006661 putative active site [active] 574087006662 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 574087006663 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 574087006664 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 574087006665 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 574087006666 S-layer homology domain; Region: SLH; pfam00395 574087006667 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 574087006668 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 574087006669 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 574087006670 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 574087006671 Predicted permeases [General function prediction only]; Region: COG0795 574087006672 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 574087006673 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 574087006674 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 574087006675 Walker A/P-loop; other site 574087006676 ATP binding site [chemical binding]; other site 574087006677 Q-loop/lid; other site 574087006678 ABC transporter signature motif; other site 574087006679 Walker B; other site 574087006680 D-loop; other site 574087006681 H-loop/switch region; other site 574087006682 OstA-like protein; Region: OstA; cl00844 574087006683 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 574087006684 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 574087006685 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 574087006686 putative acyl-acceptor binding pocket; other site 574087006687 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 574087006688 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 574087006689 active site 574087006690 motif I; other site 574087006691 motif II; other site 574087006692 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 574087006693 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 574087006694 putative active site [active] 574087006695 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 574087006696 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 574087006697 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 574087006698 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 574087006699 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 574087006700 Ligand binding site; other site 574087006701 oligomer interface; other site 574087006702 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 574087006703 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 574087006704 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 574087006705 putative acyl-acceptor binding pocket; other site 574087006706 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 574087006707 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 574087006708 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 574087006709 Walker A/P-loop; other site 574087006710 ATP binding site [chemical binding]; other site 574087006711 Q-loop/lid; other site 574087006712 ABC transporter signature motif; other site 574087006713 Walker B; other site 574087006714 D-loop; other site 574087006715 H-loop/switch region; other site 574087006716 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 574087006717 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 574087006718 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 574087006719 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 574087006720 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 574087006721 active site 574087006722 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 574087006723 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 574087006724 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 574087006725 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 574087006726 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574087006727 Walker A/P-loop; other site 574087006728 ATP binding site [chemical binding]; other site 574087006729 Q-loop/lid; other site 574087006730 ABC transporter signature motif; other site 574087006731 Walker B; other site 574087006732 D-loop; other site 574087006733 H-loop/switch region; other site 574087006734 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 574087006735 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 574087006736 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 574087006737 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 574087006738 trimer interface [polypeptide binding]; other site 574087006739 active site 574087006740 UDP-GlcNAc binding site [chemical binding]; other site 574087006741 lipid binding site [chemical binding]; lipid-binding site 574087006742 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 574087006743 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 574087006744 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 574087006745 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 574087006746 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 574087006747 Surface antigen; Region: Bac_surface_Ag; pfam01103 574087006748 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 574087006749 Family of unknown function (DUF490); Region: DUF490; pfam04357 574087006750 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 574087006751 Family of unknown function (DUF490); Region: DUF490; pfam04357 574087006752 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 574087006753 Rod binding protein; Region: Rod-binding; cl01626 574087006754 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 574087006755 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 574087006756 Flagellar L-ring protein; Region: FlgH; pfam02107 574087006757 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 574087006758 SAF-like; Region: SAF_2; pfam13144 574087006759 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 574087006760 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 574087006761 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 574087006762 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 574087006763 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 574087006764 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 574087006765 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 574087006766 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 574087006767 Stage III sporulation protein D; Region: SpoIIID; pfam12116 574087006768 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 574087006769 Peptidase family M23; Region: Peptidase_M23; pfam01551 574087006770 stage II sporulation protein D; Region: spore_II_D; TIGR02870 574087006771 Stage II sporulation protein; Region: SpoIID; pfam08486 574087006772 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 574087006773 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 574087006774 hinge; other site 574087006775 active site 574087006776 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 574087006777 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 574087006778 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 574087006779 gamma subunit interface [polypeptide binding]; other site 574087006780 epsilon subunit interface [polypeptide binding]; other site 574087006781 LBP interface [polypeptide binding]; other site 574087006782 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 574087006783 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 574087006784 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 574087006785 alpha subunit interaction interface [polypeptide binding]; other site 574087006786 Walker A motif; other site 574087006787 ATP binding site [chemical binding]; other site 574087006788 Walker B motif; other site 574087006789 inhibitor binding site; inhibition site 574087006790 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 574087006791 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 574087006792 core domain interface [polypeptide binding]; other site 574087006793 delta subunit interface [polypeptide binding]; other site 574087006794 epsilon subunit interface [polypeptide binding]; other site 574087006795 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 574087006796 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 574087006797 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 574087006798 beta subunit interaction interface [polypeptide binding]; other site 574087006799 Walker A motif; other site 574087006800 ATP binding site [chemical binding]; other site 574087006801 Walker B motif; other site 574087006802 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 574087006803 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 574087006804 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 574087006805 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 574087006806 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 574087006807 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 574087006808 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 574087006809 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 574087006810 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 574087006811 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 574087006812 ATP synthase I chain; Region: ATP_synt_I; cl09170 574087006813 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 574087006814 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 574087006815 active site 574087006816 homodimer interface [polypeptide binding]; other site 574087006817 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 574087006818 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 574087006819 Mg++ binding site [ion binding]; other site 574087006820 putative catalytic motif [active] 574087006821 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 574087006822 catalytic motif [active] 574087006823 Zn binding site [ion binding]; other site 574087006824 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087006825 active site 574087006826 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 574087006827 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 574087006828 dimer interface [polypeptide binding]; other site 574087006829 active site 574087006830 glycine-pyridoxal phosphate binding site [chemical binding]; other site 574087006831 folate binding site [chemical binding]; other site 574087006832 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 574087006833 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 574087006834 Low molecular weight phosphatase family; Region: LMWPc; cd00115 574087006835 active site 574087006836 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 574087006837 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 574087006838 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 574087006839 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 574087006840 S-adenosylmethionine binding site [chemical binding]; other site 574087006841 peptide chain release factor 1; Validated; Region: prfA; PRK00591 574087006842 This domain is found in peptide chain release factors; Region: PCRF; smart00937 574087006843 RF-1 domain; Region: RF-1; pfam00472 574087006844 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 574087006845 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 574087006846 transcription termination factor Rho; Provisional; Region: rho; PRK09376 574087006847 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 574087006848 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 574087006849 RNA binding site [nucleotide binding]; other site 574087006850 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 574087006851 multimer interface [polypeptide binding]; other site 574087006852 Walker A motif; other site 574087006853 ATP binding site [chemical binding]; other site 574087006854 Walker B motif; other site 574087006855 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 574087006856 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 574087006857 intersubunit interface [polypeptide binding]; other site 574087006858 active site 574087006859 zinc binding site [ion binding]; other site 574087006860 Na+ binding site [ion binding]; other site 574087006861 CTP synthetase; Validated; Region: pyrG; PRK05380 574087006862 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 574087006863 Catalytic site [active] 574087006864 active site 574087006865 UTP binding site [chemical binding]; other site 574087006866 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 574087006867 active site 574087006868 putative oxyanion hole; other site 574087006869 catalytic triad [active] 574087006870 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 574087006871 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 574087006872 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 574087006873 active site 574087006874 HIGH motif; other site 574087006875 KMSK motif region; other site 574087006876 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 574087006877 tRNA binding surface [nucleotide binding]; other site 574087006878 anticodon binding site; other site 574087006879 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 574087006880 Protein of unknown function (DUF441); Region: DUF441; pfam04284 574087006881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 574087006882 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 574087006883 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 574087006884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 574087006885 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 574087006886 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 574087006887 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 574087006888 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 574087006889 NAD synthetase; Provisional; Region: PRK13980 574087006890 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 574087006891 homodimer interface [polypeptide binding]; other site 574087006892 NAD binding pocket [chemical binding]; other site 574087006893 ATP binding pocket [chemical binding]; other site 574087006894 Mg binding site [ion binding]; other site 574087006895 active-site loop [active] 574087006896 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 574087006897 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 574087006898 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 574087006899 active site 574087006900 Response regulator receiver domain; Region: Response_reg; pfam00072 574087006901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 574087006902 active site 574087006903 phosphorylation site [posttranslational modification] 574087006904 intermolecular recognition site; other site 574087006905 dimerization interface [polypeptide binding]; other site 574087006906 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 574087006907 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 574087006908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 574087006909 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 574087006910 Sensory domain found in PocR; Region: PocR; pfam10114 574087006911 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 574087006912 Histidine kinase; Region: His_kinase; pfam06580 574087006913 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 574087006914 ATP binding site [chemical binding]; other site 574087006915 Mg2+ binding site [ion binding]; other site 574087006916 G-X-G motif; other site 574087006917 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 574087006918 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 574087006919 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 574087006920 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 574087006921 protein binding site [polypeptide binding]; other site 574087006922 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 574087006923 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 574087006924 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 574087006925 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 574087006926 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 574087006927 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 574087006928 HflX GTPase family; Region: HflX; cd01878 574087006929 G1 box; other site 574087006930 GTP/Mg2+ binding site [chemical binding]; other site 574087006931 Switch I region; other site 574087006932 G2 box; other site 574087006933 G3 box; other site 574087006934 Switch II region; other site 574087006935 G4 box; other site 574087006936 G5 box; other site 574087006937 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 574087006938 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 574087006939 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 574087006940 NAD synthetase; Provisional; Region: PRK13980 574087006941 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 574087006942 homodimer interface [polypeptide binding]; other site 574087006943 NAD binding pocket [chemical binding]; other site 574087006944 ATP binding pocket [chemical binding]; other site 574087006945 Mg binding site [ion binding]; other site 574087006946 active-site loop [active] 574087006947 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 574087006948 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 574087006949 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 574087006950 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 574087006951 CGGC domain; Region: CGGC; cl02356 574087006952 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 574087006953 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 574087006954 dimer interface [polypeptide binding]; other site 574087006955 active site 574087006956 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 574087006957 catalytic residues [active] 574087006958 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 574087006959 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 574087006960 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574087006961 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 574087006962 catalytic residues [active] 574087006963 BCCT family transporter; Region: BCCT; pfam02028 574087006964 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 574087006965 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 574087006966 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 574087006967 glycine/sarcosine/betaine reductase complex protein A; Reviewed; Region: PRK13265 574087006968 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 574087006969 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 574087006970 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574087006971 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 574087006972 catalytic residues [active] 574087006973 BCCT family transporter; Region: BCCT; pfam02028 574087006974 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 574087006975 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 574087006976 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 574087006977 glycine/sarcosine/betaine reductase complex protein A; Reviewed; Region: PRK13265 574087006978 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 574087006979 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 574087006980 G1 box; other site 574087006981 GTP/Mg2+ binding site [chemical binding]; other site 574087006982 G2 box; other site 574087006983 Switch I region; other site 574087006984 G3 box; other site 574087006985 Switch II region; other site 574087006986 G4 box; other site 574087006987 G5 box; other site 574087006988 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 574087006989 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 574087006990 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 574087006991 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 574087006992 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 574087006993 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 574087006994 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 574087006995 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574087006996 catalytic residue [active] 574087006997 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 574087006998 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 574087006999 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 574087007000 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 574087007001 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 574087007002 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 574087007003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087007004 homodimer interface [polypeptide binding]; other site 574087007005 catalytic residue [active] 574087007006 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 574087007007 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 574087007008 Walker A/P-loop; other site 574087007009 ATP binding site [chemical binding]; other site 574087007010 Q-loop/lid; other site 574087007011 ABC transporter signature motif; other site 574087007012 Walker B; other site 574087007013 D-loop; other site 574087007014 H-loop/switch region; other site 574087007015 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 574087007016 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 574087007017 dimer interface [polypeptide binding]; other site 574087007018 conserved gate region; other site 574087007019 putative PBP binding loops; other site 574087007020 ABC-ATPase subunit interface; other site 574087007021 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 574087007022 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 574087007023 substrate binding pocket [chemical binding]; other site 574087007024 membrane-bound complex binding site; other site 574087007025 hinge residues; other site 574087007026 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 574087007027 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 574087007028 active site residue [active] 574087007029 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 574087007030 active site residue [active] 574087007031 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 574087007032 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 574087007033 active site residue [active] 574087007034 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 574087007035 active site residue [active] 574087007036 CGGC domain; Region: CGGC; cl02356 574087007037 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 574087007038 gating phenylalanine in ion channel; other site 574087007039 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 574087007040 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 574087007041 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 574087007042 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 574087007043 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 574087007044 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 574087007045 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 574087007046 catalytic loop [active] 574087007047 iron binding site [ion binding]; other site 574087007048 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 574087007049 4Fe-4S binding domain; Region: Fer4; pfam00037 574087007050 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 574087007051 [4Fe-4S] binding site [ion binding]; other site 574087007052 molybdopterin cofactor binding site; other site 574087007053 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 574087007054 molybdopterin cofactor binding site; other site 574087007055 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 574087007056 catalytic loop [active] 574087007057 iron binding site [ion binding]; other site 574087007058 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 574087007059 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 574087007060 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087007061 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087007062 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 574087007063 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 574087007064 dimer interface [polypeptide binding]; other site 574087007065 [2Fe-2S] cluster binding site [ion binding]; other site 574087007066 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 574087007067 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 574087007068 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574087007069 4Fe-4S binding domain; Region: Fer4; pfam00037 574087007070 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 574087007071 dimer interface [polypeptide binding]; other site 574087007072 [2Fe-2S] cluster binding site [ion binding]; other site 574087007073 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 574087007074 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 574087007075 putative dimer interface [polypeptide binding]; other site 574087007076 [2Fe-2S] cluster binding site [ion binding]; other site 574087007077 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 574087007078 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 574087007079 CoA binding domain; Region: CoA_binding; smart00881 574087007080 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 574087007081 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 574087007082 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 574087007083 homodimer interface [polypeptide binding]; other site 574087007084 substrate-cofactor binding pocket; other site 574087007085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574087007086 catalytic residue [active] 574087007087 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 574087007088 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 574087007089 glutamine binding [chemical binding]; other site 574087007090 catalytic triad [active] 574087007091 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 574087007092 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 574087007093 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 574087007094 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 574087007095 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 574087007096 purine monophosphate binding site [chemical binding]; other site 574087007097 dimer interface [polypeptide binding]; other site 574087007098 putative catalytic residues [active] 574087007099 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 574087007100 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 574087007101 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 574087007102 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 574087007103 active site 574087007104 substrate binding site [chemical binding]; other site 574087007105 cosubstrate binding site; other site 574087007106 catalytic site [active] 574087007107 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 574087007108 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 574087007109 dimerization interface [polypeptide binding]; other site 574087007110 putative ATP binding site [chemical binding]; other site 574087007111 amidophosphoribosyltransferase; Provisional; Region: PRK05793 574087007112 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 574087007113 active site 574087007114 tetramer interface [polypeptide binding]; other site 574087007115 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574087007116 active site 574087007117 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 574087007118 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 574087007119 dimerization interface [polypeptide binding]; other site 574087007120 ATP binding site [chemical binding]; other site 574087007121 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 574087007122 dimerization interface [polypeptide binding]; other site 574087007123 ATP binding site [chemical binding]; other site 574087007124 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 574087007125 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 574087007126 putative active site [active] 574087007127 catalytic triad [active] 574087007128 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 574087007129 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 574087007130 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 574087007131 ATP binding site [chemical binding]; other site 574087007132 active site 574087007133 substrate binding site [chemical binding]; other site 574087007134 adenylosuccinate lyase; Provisional; Region: PRK09285 574087007135 Adenylsuccinate lyase (ASL)_like; Region: Adenylsuccinate_lyase_like; cd01595 574087007136 active site 574087007137 tetramer interface [polypeptide binding]; other site 574087007138 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 574087007139 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 574087007140 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 574087007141 nucleophile elbow; other site 574087007142 AIR carboxylase; Region: AIRC; pfam00731 574087007143 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 574087007144 ATP-grasp domain; Region: ATP-grasp; pfam02222 574087007145 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 574087007146 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 574087007147 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 574087007148 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 574087007149 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 574087007150 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 574087007151 GDP-binding site [chemical binding]; other site 574087007152 ACT binding site; other site 574087007153 IMP binding site; other site 574087007154 adenylosuccinate lyase; Provisional; Region: PRK07492 574087007155 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 574087007156 tetramer interface [polypeptide binding]; other site 574087007157 active site 574087007158 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 574087007159 replicative DNA helicase; Region: DnaB; TIGR00665 574087007160 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 574087007161 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 574087007162 Walker A motif; other site 574087007163 ATP binding site [chemical binding]; other site 574087007164 Walker B motif; other site 574087007165 DNA binding loops [nucleotide binding] 574087007166 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 574087007167 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 574087007168 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 574087007169 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 574087007170 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 574087007171 MazG-like family; Region: MazG-like; pfam12643 574087007172 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 574087007173 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 574087007174 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 574087007175 dimer interface [polypeptide binding]; other site 574087007176 ssDNA binding site [nucleotide binding]; other site 574087007177 tetramer (dimer of dimers) interface [polypeptide binding]; other site 574087007178 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 574087007179 GTP-binding protein YchF; Reviewed; Region: PRK09601 574087007180 YchF GTPase; Region: YchF; cd01900 574087007181 G1 box; other site 574087007182 GTP/Mg2+ binding site [chemical binding]; other site 574087007183 Switch I region; other site 574087007184 G2 box; other site 574087007185 Switch II region; other site 574087007186 G3 box; other site 574087007187 G4 box; other site 574087007188 G5 box; other site 574087007189 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 574087007190 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 574087007191 Uncharacterized membrane protein [Function unknown]; Region: COG3949 574087007192 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 574087007193 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 574087007194 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 574087007195 Protein of unknown function (DUF554); Region: DUF554; pfam04474 574087007196 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 574087007197 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 574087007198 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574087007199 catalytic residue [active] 574087007200 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 574087007201 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 574087007202 G1 box; other site 574087007203 GTP/Mg2+ binding site [chemical binding]; other site 574087007204 Switch I region; other site 574087007205 G2 box; other site 574087007206 Switch II region; other site 574087007207 G3 box; other site 574087007208 G4 box; other site 574087007209 G5 box; other site 574087007210 Probable transposase; Region: OrfB_IS605; pfam01385 574087007211 Probable transposase; Region: OrfB_IS605; pfam01385 574087007212 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 574087007213 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 574087007214 ParB-like nuclease domain; Region: ParBc; pfam02195 574087007215 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 574087007216 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 574087007217 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 574087007218 P-loop; other site 574087007219 Magnesium ion binding site [ion binding]; other site 574087007220 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 574087007221 ParB-like nuclease domain; Region: ParBc; pfam02195 574087007222 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 574087007223 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 574087007224 S-adenosylmethionine binding site [chemical binding]; other site 574087007225 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 574087007226 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 574087007227 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 574087007228 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 574087007229 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 574087007230 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 574087007231 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 574087007232 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 574087007233 trmE is a tRNA modification GTPase; Region: trmE; cd04164 574087007234 G1 box; other site 574087007235 GTP/Mg2+ binding site [chemical binding]; other site 574087007236 Switch I region; other site 574087007237 G2 box; other site 574087007238 Switch II region; other site 574087007239 G3 box; other site 574087007240 G4 box; other site 574087007241 G5 box; other site 574087007242 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 574087007243 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 574087007244 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 574087007245 G-X-X-G motif; other site 574087007246 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 574087007247 RxxxH motif; other site 574087007248 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 574087007249 Haemolytic domain; Region: Haemolytic; pfam01809 574087007250 ribonuclease P; Reviewed; Region: rnpA; PRK00499