-- dump date 20140619_052334 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1087452000001 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 1087452000002 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1087452000003 Walker A motif; other site 1087452000004 ATP binding site [chemical binding]; other site 1087452000005 Walker B motif; other site 1087452000006 arginine finger; other site 1087452000007 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 1087452000008 DnaA box-binding interface [nucleotide binding]; other site 1087452000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 1087452000010 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 1087452000011 putative DNA binding surface [nucleotide binding]; other site 1087452000012 dimer interface [polypeptide binding]; other site 1087452000013 beta-clamp/clamp loader binding surface; other site 1087452000014 beta-clamp/translesion DNA polymerase binding surface; other site 1087452000015 recombination protein F; Reviewed; Region: recF; PRK00064 1087452000016 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1087452000017 Walker A/P-loop; other site 1087452000018 ATP binding site [chemical binding]; other site 1087452000019 Q-loop/lid; other site 1087452000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452000021 ABC transporter signature motif; other site 1087452000022 Walker B; other site 1087452000023 D-loop; other site 1087452000024 H-loop/switch region; other site 1087452000025 hypothetical protein; Provisional; Region: PRK00111 1087452000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1087452000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1087452000028 ATP binding site [chemical binding]; other site 1087452000029 Mg2+ binding site [ion binding]; other site 1087452000030 G-X-G motif; other site 1087452000031 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 1087452000032 anchoring element; other site 1087452000033 dimer interface [polypeptide binding]; other site 1087452000034 ATP binding site [chemical binding]; other site 1087452000035 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 1087452000036 active site 1087452000037 putative metal-binding site [ion binding]; other site 1087452000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1087452000039 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1087452000040 metal binding site [ion binding]; metal-binding site 1087452000041 DNA gyrase subunit A; Validated; Region: PRK05560 1087452000042 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 1087452000043 CAP-like domain; other site 1087452000044 active site 1087452000045 primary dimer interface [polypeptide binding]; other site 1087452000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1087452000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1087452000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1087452000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1087452000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1087452000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1087452000052 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 1087452000053 YwiC-like protein; Region: YwiC; pfam14256 1087452000054 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1087452000055 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1087452000056 putative ligand binding site [chemical binding]; other site 1087452000057 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1087452000058 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1087452000059 TM-ABC transporter signature motif; other site 1087452000060 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1087452000061 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1087452000062 Walker A/P-loop; other site 1087452000063 ATP binding site [chemical binding]; other site 1087452000064 Q-loop/lid; other site 1087452000065 ABC transporter signature motif; other site 1087452000066 Walker B; other site 1087452000067 D-loop; other site 1087452000068 H-loop/switch region; other site 1087452000069 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1087452000070 active site 1087452000071 Rhomboid family; Region: Rhomboid; pfam01694 1087452000072 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cl17348 1087452000073 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1087452000074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1087452000075 Glycerophosphodiester phosphodiesterase-like domain of spider venom sphingomyelinases D, bacterial phospholipase D, and similar proteins; Region: GDPD_like_SMaseD_PLD; cd08576 1087452000076 putative active site [active] 1087452000077 catalytic site [active] 1087452000078 Mg binding site [ion binding]; other site 1087452000079 catalytic loop [active] 1087452000080 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1087452000081 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452000082 Walker A/P-loop; other site 1087452000083 ATP binding site [chemical binding]; other site 1087452000084 Q-loop/lid; other site 1087452000085 ABC transporter signature motif; other site 1087452000086 Walker B; other site 1087452000087 D-loop; other site 1087452000088 H-loop/switch region; other site 1087452000089 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1087452000090 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 1087452000091 ABC-ATPase subunit interface; other site 1087452000092 dimer interface [polypeptide binding]; other site 1087452000093 putative PBP binding regions; other site 1087452000094 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1087452000095 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 1087452000096 ABC-ATPase subunit interface; other site 1087452000097 dimer interface [polypeptide binding]; other site 1087452000098 putative PBP binding regions; other site 1087452000099 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 1087452000100 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1087452000101 siderophore binding site; other site 1087452000102 putative septation inhibitor protein; Reviewed; Region: PRK00159 1087452000103 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1087452000104 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1087452000105 active site 1087452000106 ATP binding site [chemical binding]; other site 1087452000107 substrate binding site [chemical binding]; other site 1087452000108 activation loop (A-loop); other site 1087452000109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1087452000110 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 1087452000111 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 1087452000112 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 1087452000113 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 1087452000114 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1087452000115 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1087452000116 active site 1087452000117 ATP binding site [chemical binding]; other site 1087452000118 substrate binding site [chemical binding]; other site 1087452000119 activation loop (A-loop); other site 1087452000120 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1087452000121 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1087452000122 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1087452000123 Protein phosphatase 2C; Region: PP2C; pfam00481 1087452000124 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 1087452000125 active site 1087452000126 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1087452000127 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1087452000128 phosphopeptide binding site; other site 1087452000129 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 1087452000130 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1087452000131 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1087452000132 phosphopeptide binding site; other site 1087452000133 CAAX protease self-immunity; Region: Abi; pfam02517 1087452000134 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1087452000135 Predicted transcriptional regulators [Transcription]; Region: COG1695 1087452000136 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1087452000137 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1087452000138 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452000139 intersubunit interface [polypeptide binding]; other site 1087452000140 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1087452000141 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452000142 Walker A/P-loop; other site 1087452000143 ATP binding site [chemical binding]; other site 1087452000144 Q-loop/lid; other site 1087452000145 ABC transporter signature motif; other site 1087452000146 Walker B; other site 1087452000147 D-loop; other site 1087452000148 H-loop/switch region; other site 1087452000149 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1087452000150 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 1087452000151 ABC-ATPase subunit interface; other site 1087452000152 dimer interface [polypeptide binding]; other site 1087452000153 putative PBP binding regions; other site 1087452000154 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1087452000155 MgtE intracellular N domain; Region: MgtE_N; smart00924 1087452000156 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 1087452000157 Divalent cation transporter; Region: MgtE; pfam01769 1087452000158 trehalose synthase; Region: treS_nterm; TIGR02456 1087452000159 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_2; cd11348 1087452000160 active site 1087452000161 catalytic site [active] 1087452000162 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1087452000163 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 1087452000164 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1087452000165 putative substrate translocation pore; other site 1087452000166 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1087452000167 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 1087452000168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1087452000169 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 1087452000170 DNA binding residues [nucleotide binding] 1087452000171 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1087452000172 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1087452000173 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1087452000174 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1087452000175 catalytic residues [active] 1087452000176 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1087452000177 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 1087452000178 dimer interface [polypeptide binding]; other site 1087452000179 conserved gate region; other site 1087452000180 putative PBP binding loops; other site 1087452000181 ABC-ATPase subunit interface; other site 1087452000182 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1087452000183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452000184 Walker A/P-loop; other site 1087452000185 ATP binding site [chemical binding]; other site 1087452000186 Q-loop/lid; other site 1087452000187 ABC transporter signature motif; other site 1087452000188 Walker B; other site 1087452000189 D-loop; other site 1087452000190 H-loop/switch region; other site 1087452000191 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 1087452000192 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1087452000193 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1087452000194 putative metal binding site [ion binding]; other site 1087452000195 biotin synthase; Validated; Region: PRK06256 1087452000196 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 1087452000197 FeS/SAM binding site; other site 1087452000198 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1087452000199 MepB protein; Region: MepB; cl01985 1087452000200 AMP nucleosidase; Provisional; Region: PRK08292 1087452000201 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1087452000202 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1087452000203 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 1087452000204 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1087452000205 active site 1087452000206 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 1087452000207 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 1087452000208 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1087452000209 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1087452000210 Lipase (class 2); Region: Lipase_2; pfam01674 1087452000211 NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles; Region: NADH_oxidase; cd03370 1087452000212 dimer interface [polypeptide binding]; other site 1087452000213 FMN binding site [chemical binding]; other site 1087452000214 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1087452000215 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1087452000216 trimer interface [polypeptide binding]; other site 1087452000217 putative metal binding site [ion binding]; other site 1087452000218 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1087452000219 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1087452000220 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1087452000221 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1087452000222 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1087452000223 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1087452000224 Coenzyme A binding pocket [chemical binding]; other site 1087452000225 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1087452000226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 1087452000227 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1087452000228 MarR family; Region: MarR; pfam01047 1087452000229 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1087452000230 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1087452000231 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1087452000232 hypothetical protein; Provisional; Region: PRK10621 1087452000233 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1087452000234 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1087452000235 active site 1087452000236 phosphorylation site [posttranslational modification] 1087452000237 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1087452000238 active site 1087452000239 P-loop; other site 1087452000240 phosphorylation site [posttranslational modification] 1087452000241 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1087452000242 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 1087452000243 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 1087452000244 ATP binding site [chemical binding]; other site 1087452000245 putative Mg++ binding site [ion binding]; other site 1087452000246 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 1087452000247 nucleotide binding region [chemical binding]; other site 1087452000248 ATP-binding site [chemical binding]; other site 1087452000249 Helicase associated domain (HA2); Region: HA2; pfam04408 1087452000250 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1087452000251 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1087452000252 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1087452000253 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1087452000254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1087452000255 NAD(P) binding site [chemical binding]; other site 1087452000256 active site 1087452000257 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1087452000258 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 1087452000259 RNA binding surface [nucleotide binding]; other site 1087452000260 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1087452000261 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1087452000262 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1087452000263 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1087452000264 DNA binding site [nucleotide binding] 1087452000265 active site 1087452000266 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1087452000267 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 1087452000268 active site 1087452000269 glycerol kinase; Provisional; Region: glpK; PRK00047 1087452000270 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1087452000271 nucleotide binding site [chemical binding]; other site 1087452000272 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1087452000273 amphipathic channel; other site 1087452000274 Asn-Pro-Ala signature motifs; other site 1087452000275 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1087452000276 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1087452000277 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1087452000278 active site 1087452000279 Zn binding site [ion binding]; other site 1087452000280 Protease prsW family; Region: PrsW-protease; pfam13367 1087452000281 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1087452000282 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1087452000283 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 1087452000284 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 1087452000285 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 1087452000286 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1087452000287 classical (c) SDRs; Region: SDR_c; cd05233 1087452000288 NAD(P) binding site [chemical binding]; other site 1087452000289 active site 1087452000290 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1087452000291 FAD binding domain; Region: FAD_binding_4; pfam01565 1087452000292 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1087452000293 Predicted membrane protein [Function unknown]; Region: COG2246 1087452000294 GtrA-like protein; Region: GtrA; pfam04138 1087452000295 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1087452000296 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 1087452000297 active site 1087452000298 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1087452000299 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1087452000300 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1087452000301 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1087452000302 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1087452000303 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 1087452000304 ABC-ATPase subunit interface; other site 1087452000305 dimer interface [polypeptide binding]; other site 1087452000306 putative PBP binding regions; other site 1087452000307 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452000308 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1087452000309 intersubunit interface [polypeptide binding]; other site 1087452000310 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1087452000311 active site 1087452000312 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1087452000313 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1087452000314 Walker A/P-loop; other site 1087452000315 ATP binding site [chemical binding]; other site 1087452000316 Q-loop/lid; other site 1087452000317 ABC transporter signature motif; other site 1087452000318 Walker B; other site 1087452000319 D-loop; other site 1087452000320 H-loop/switch region; other site 1087452000321 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1087452000322 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1087452000323 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1087452000324 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 1087452000325 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1087452000326 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1087452000327 NAD(P) binding site [chemical binding]; other site 1087452000328 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1087452000329 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 1087452000330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452000331 homodimer interface [polypeptide binding]; other site 1087452000332 catalytic residue [active] 1087452000333 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 1087452000334 transmembrane helices; other site 1087452000335 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1087452000336 CAT RNA binding domain; Region: CAT_RBD; smart01061 1087452000337 PRD domain; Region: PRD; pfam00874 1087452000338 PRD domain; Region: PRD; pfam00874 1087452000339 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1087452000340 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1087452000341 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1087452000342 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1087452000343 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1087452000344 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 1087452000345 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 1087452000346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452000347 homodimer interface [polypeptide binding]; other site 1087452000348 catalytic residue [active] 1087452000349 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1087452000350 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 1087452000351 active site 1087452000352 multimer interface [polypeptide binding]; other site 1087452000353 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1087452000354 predicted active site [active] 1087452000355 catalytic triad [active] 1087452000356 prephenate dehydrogenase; Validated; Region: PRK06545 1087452000357 prephenate dehydrogenase; Validated; Region: PRK08507 1087452000358 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 1087452000359 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 1087452000360 nucleoside/Zn binding site; other site 1087452000361 dimer interface [polypeptide binding]; other site 1087452000362 catalytic motif [active] 1087452000363 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1087452000364 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1087452000365 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1087452000366 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1087452000367 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 1087452000368 active site 1087452000369 KMSKS motif; other site 1087452000370 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1087452000371 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1087452000372 Shikimate kinase; Region: SKI; pfam01202 1087452000373 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1087452000374 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 1087452000375 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 1087452000376 putative NAD(P) binding site [chemical binding]; other site 1087452000377 catalytic Zn binding site [ion binding]; other site 1087452000378 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 1087452000379 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1087452000380 NADP binding site [chemical binding]; other site 1087452000381 homodimer interface [polypeptide binding]; other site 1087452000382 active site 1087452000383 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 1087452000384 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 1087452000385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452000386 homodimer interface [polypeptide binding]; other site 1087452000387 catalytic residue [active] 1087452000388 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1087452000389 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1087452000390 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 1087452000391 Walker A motif; other site 1087452000392 ATP binding site [chemical binding]; other site 1087452000393 Walker B motif; other site 1087452000394 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 1087452000395 arginine finger; other site 1087452000396 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1087452000397 hypothetical protein; Validated; Region: PRK00153 1087452000398 recombination protein RecR; Reviewed; Region: recR; PRK00076 1087452000399 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 1087452000400 RecR protein; Region: RecR; pfam02132 1087452000401 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 1087452000402 putative active site [active] 1087452000403 putative metal-binding site [ion binding]; other site 1087452000404 tetramer interface [polypeptide binding]; other site 1087452000405 putative transporter; Provisional; Region: PRK09821 1087452000406 GntP family permease; Region: GntP_permease; pfam02447 1087452000407 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1087452000408 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1087452000409 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1087452000410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1087452000411 DNA-binding site [nucleotide binding]; DNA binding site 1087452000412 FCD domain; Region: FCD; pfam07729 1087452000413 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1087452000414 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1087452000415 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1087452000416 catalytic triad [active] 1087452000417 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1087452000418 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1087452000419 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1087452000420 DNA polymerase III subunit epsilon; Validated; Region: PRK05601 1087452000421 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1087452000422 active site 1087452000423 catalytic site [active] 1087452000424 substrate binding site [chemical binding]; other site 1087452000425 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; cl00038 1087452000426 2-isopropylmalate synthase; Validated; Region: PRK03739 1087452000427 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1087452000428 active site 1087452000429 catalytic residues [active] 1087452000430 metal binding site [ion binding]; metal-binding site 1087452000431 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1087452000432 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1087452000433 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 1087452000434 DNA binding residues [nucleotide binding] 1087452000435 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1087452000436 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1087452000437 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 1087452000438 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1087452000439 putative substrate translocation pore; other site 1087452000440 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1087452000441 intersubunit interface [polypeptide binding]; other site 1087452000442 active site 1087452000443 catalytic residue [active] 1087452000444 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1087452000445 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 1087452000446 active site 1087452000447 substrate binding site [chemical binding]; other site 1087452000448 metal binding site [ion binding]; metal-binding site 1087452000449 TQXA domain; Region: TQXA_dom; TIGR03934 1087452000450 Cna protein B-type domain; Region: Cna_B; pfam05738 1087452000451 Cna protein B-type domain; Region: Cna_B; pfam05738 1087452000452 Cna protein B-type domain; Region: Cna_B; pfam05738 1087452000453 aspartate kinase; Reviewed; Region: PRK06635 1087452000454 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1087452000455 putative nucleotide binding site [chemical binding]; other site 1087452000456 putative catalytic residues [active] 1087452000457 putative Mg ion binding site [ion binding]; other site 1087452000458 putative aspartate binding site [chemical binding]; other site 1087452000459 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 1087452000460 putative allosteric regulatory site; other site 1087452000461 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 1087452000462 putative allosteric regulatory residue; other site 1087452000463 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1087452000464 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1087452000465 RNA polymerase sigma factor; Provisional; Region: PRK12535 1087452000466 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1087452000467 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1087452000468 DNA binding residues [nucleotide binding] 1087452000469 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1087452000470 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1087452000471 heme binding pocket [chemical binding]; other site 1087452000472 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1087452000473 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1087452000474 Walker A/P-loop; other site 1087452000475 ATP binding site [chemical binding]; other site 1087452000476 Q-loop/lid; other site 1087452000477 ABC transporter signature motif; other site 1087452000478 Walker B; other site 1087452000479 D-loop; other site 1087452000480 H-loop/switch region; other site 1087452000481 TOBE domain; Region: TOBE_2; pfam08402 1087452000482 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 1087452000483 dimer interface [polypeptide binding]; other site 1087452000484 conserved gate region; other site 1087452000485 ABC-ATPase subunit interface; other site 1087452000486 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1087452000487 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1087452000488 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1087452000489 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 1087452000490 putative substrate translocation pore; other site 1087452000491 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1087452000492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452000493 active site 1087452000494 phosphorylation site [posttranslational modification] 1087452000495 intermolecular recognition site; other site 1087452000496 dimerization interface [polypeptide binding]; other site 1087452000497 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 1087452000498 DNA binding site [nucleotide binding] 1087452000499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1087452000500 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 1087452000501 dimer interface [polypeptide binding]; other site 1087452000502 phosphorylation site [posttranslational modification] 1087452000503 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1087452000504 ATP binding site [chemical binding]; other site 1087452000505 Mg2+ binding site [ion binding]; other site 1087452000506 G-X-G motif; other site 1087452000507 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1087452000508 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1087452000509 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12654 1087452000510 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1087452000511 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1087452000512 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1087452000513 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 1087452000514 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1087452000515 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1087452000516 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1087452000517 Predicted membrane protein [Function unknown]; Region: COG1511 1087452000518 Predicted membrane protein [Function unknown]; Region: COG1511 1087452000519 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 1087452000520 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1087452000521 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1087452000522 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452000523 Walker A/P-loop; other site 1087452000524 ATP binding site [chemical binding]; other site 1087452000525 Q-loop/lid; other site 1087452000526 ABC transporter signature motif; other site 1087452000527 Walker B; other site 1087452000528 D-loop; other site 1087452000529 H-loop/switch region; other site 1087452000530 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1087452000531 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1087452000532 putative active site [active] 1087452000533 putative metal binding site [ion binding]; other site 1087452000534 Yqey-like protein; Region: YqeY; pfam09424 1087452000535 Transglycosylase; Region: Transgly; pfam00912 1087452000536 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1087452000537 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1087452000538 PASTA domain; Region: PASTA; pfam03793 1087452000539 Transcription factor WhiB; Region: Whib; pfam02467 1087452000540 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1087452000541 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1087452000542 homotrimer interaction site [polypeptide binding]; other site 1087452000543 putative active site [active] 1087452000544 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1087452000545 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1087452000546 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 1087452000547 ligand binding site [chemical binding]; other site 1087452000548 flexible hinge region; other site 1087452000549 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1087452000550 putative switch regulator; other site 1087452000551 non-specific DNA interactions [nucleotide binding]; other site 1087452000552 DNA binding site [nucleotide binding] 1087452000553 sequence specific DNA binding site [nucleotide binding]; other site 1087452000554 putative cAMP binding site [chemical binding]; other site 1087452000555 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1087452000556 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1087452000557 minor groove reading motif; other site 1087452000558 helix-hairpin-helix signature motif; other site 1087452000559 substrate binding pocket [chemical binding]; other site 1087452000560 active site 1087452000561 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1087452000562 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 1087452000563 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1087452000564 catalytic residues [active] 1087452000565 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1087452000566 putative active site [active] 1087452000567 putative CoA binding site [chemical binding]; other site 1087452000568 nudix motif; other site 1087452000569 metal binding site [ion binding]; metal-binding site 1087452000570 Colicin V production protein; Region: Colicin_V; pfam02674 1087452000571 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1087452000572 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1087452000573 active site 1087452000574 substrate binding sites [chemical binding]; other site 1087452000575 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1087452000576 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1087452000577 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1087452000578 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 1087452000579 motif II; other site 1087452000580 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 1087452000581 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1087452000582 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 1087452000583 ATP binding site [chemical binding]; other site 1087452000584 Walker A motif; other site 1087452000585 hexamer interface [polypeptide binding]; other site 1087452000586 Walker B motif; other site 1087452000587 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1087452000588 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 1087452000589 helicase/secretion neighborhood TadE-like protein; Region: tadE_like_DECH; TIGR03816 1087452000590 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 1087452000591 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 1087452000592 ATP binding site [chemical binding]; other site 1087452000593 putative Mg++ binding site [ion binding]; other site 1087452000594 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 1087452000595 nucleotide binding region [chemical binding]; other site 1087452000596 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1087452000597 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 1087452000598 DNA-binding site [nucleotide binding]; DNA binding site 1087452000599 RNA-binding motif; other site 1087452000600 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1087452000601 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 1087452000602 active site 1087452000603 interdomain interaction site; other site 1087452000604 putative metal-binding site [ion binding]; other site 1087452000605 nucleotide binding site [chemical binding]; other site 1087452000606 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 1087452000607 domain I; other site 1087452000608 DNA binding groove [nucleotide binding] 1087452000609 phosphate binding site [ion binding]; other site 1087452000610 domain II; other site 1087452000611 domain III; other site 1087452000612 nucleotide binding site [chemical binding]; other site 1087452000613 catalytic site [active] 1087452000614 domain IV; other site 1087452000615 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1087452000616 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1087452000617 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1087452000618 Predicted membrane protein [Function unknown]; Region: COG1297 1087452000619 putative oligopeptide transporter, OPT family; Region: TIGR00733 1087452000620 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 1087452000621 dimerization interface [polypeptide binding]; other site 1087452000622 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1087452000623 cyclase homology domain; Region: CHD; cd07302 1087452000624 nucleotidyl binding site; other site 1087452000625 metal binding site [ion binding]; metal-binding site 1087452000626 dimer interface [polypeptide binding]; other site 1087452000627 DNA polymerase III subunit delta'; Validated; Region: PRK07940 1087452000628 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1087452000629 acyl-CoA synthetase; Validated; Region: PRK07788 1087452000630 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1087452000631 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1087452000632 acyl-activating enzyme (AAE) consensus motif; other site 1087452000633 acyl-activating enzyme (AAE) consensus motif; other site 1087452000634 AMP binding site [chemical binding]; other site 1087452000635 active site 1087452000636 CoA binding site [chemical binding]; other site 1087452000637 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1087452000638 active site 1087452000639 catalytic triad [active] 1087452000640 oxyanion hole [active] 1087452000641 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1087452000642 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1087452000643 substrate binding site; other site 1087452000644 tetramer interface; other site 1087452000645 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1087452000646 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1087452000647 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1087452000648 NADP binding site [chemical binding]; other site 1087452000649 active site 1087452000650 putative substrate binding site [chemical binding]; other site 1087452000651 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1087452000652 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1087452000653 NAD binding site [chemical binding]; other site 1087452000654 substrate binding site [chemical binding]; other site 1087452000655 homodimer interface [polypeptide binding]; other site 1087452000656 active site 1087452000657 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 1087452000658 Zn binding site [ion binding]; other site 1087452000659 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1087452000660 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1087452000661 Putative esterase; Region: Esterase; pfam00756 1087452000662 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 1087452000663 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1087452000664 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1087452000665 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1087452000666 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1087452000667 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 1087452000668 non-specific DNA binding site [nucleotide binding]; other site 1087452000669 salt bridge; other site 1087452000670 sequence-specific DNA binding site [nucleotide binding]; other site 1087452000671 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1087452000672 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1087452000673 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1087452000674 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 1087452000675 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1087452000676 putative Iron-sulfur protein interface [polypeptide binding]; other site 1087452000677 proximal heme binding site [chemical binding]; other site 1087452000678 distal heme binding site [chemical binding]; other site 1087452000679 putative dimer interface [polypeptide binding]; other site 1087452000680 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 1087452000681 L-aspartate oxidase; Provisional; Region: PRK06175 1087452000682 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1087452000683 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1087452000684 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1087452000685 Predicted membrane protein [Function unknown]; Region: COG2733 1087452000686 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 1087452000687 Class I aldolases; Region: Aldolase_Class_I; cl17187 1087452000688 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1087452000689 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1087452000690 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 1087452000691 FeS/SAM binding site; other site 1087452000692 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1087452000693 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1087452000694 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1087452000695 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 1087452000696 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 1087452000697 FAD binding domain; Region: FAD_binding_4; pfam01565 1087452000698 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1087452000699 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 1087452000700 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1087452000701 acyl-activating enzyme (AAE) consensus motif; other site 1087452000702 putative AMP binding site [chemical binding]; other site 1087452000703 putative active site [active] 1087452000704 putative CoA binding site [chemical binding]; other site 1087452000705 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 1087452000706 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 1087452000707 putative ADP-binding pocket [chemical binding]; other site 1087452000708 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 1087452000709 catalytic core [active] 1087452000710 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 1087452000711 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1087452000712 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 1087452000713 dimer interface [polypeptide binding]; other site 1087452000714 phosphorylation site [posttranslational modification] 1087452000715 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1087452000716 ATP binding site [chemical binding]; other site 1087452000717 Mg2+ binding site [ion binding]; other site 1087452000718 G-X-G motif; other site 1087452000719 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1087452000720 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452000721 active site 1087452000722 phosphorylation site [posttranslational modification] 1087452000723 intermolecular recognition site; other site 1087452000724 dimerization interface [polypeptide binding]; other site 1087452000725 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 1087452000726 DNA binding site [nucleotide binding] 1087452000727 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1087452000728 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1087452000729 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1087452000730 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1087452000731 DNA binding domain, excisionase family; Region: excise; TIGR01764 1087452000732 Thioredoxin; Region: Thioredoxin_4; cl17273 1087452000733 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1087452000734 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1087452000735 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1087452000736 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1087452000737 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 1087452000738 motif II; other site 1087452000739 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1087452000740 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1087452000741 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1087452000742 tRNA; other site 1087452000743 putative tRNA binding site [nucleotide binding]; other site 1087452000744 putative NADP binding site [chemical binding]; other site 1087452000745 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1087452000746 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1087452000747 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; cl17708 1087452000748 domain interfaces; other site 1087452000749 active site 1087452000750 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 1087452000751 active site 1087452000752 homodimer interface [polypeptide binding]; other site 1087452000753 SAM binding site [chemical binding]; other site 1087452000754 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1087452000755 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 1087452000756 active site 1087452000757 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 1087452000758 dimer interface [polypeptide binding]; other site 1087452000759 active site 1087452000760 Schiff base residues; other site 1087452000761 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1087452000762 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1087452000763 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1087452000764 substrate binding site [chemical binding]; other site 1087452000765 active site 1087452000766 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1087452000767 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1087452000768 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1087452000769 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 1087452000770 inhibitor-cofactor binding pocket; inhibition site 1087452000771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452000772 catalytic residue [active] 1087452000773 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 1087452000774 catalytic core [active] 1087452000775 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 1087452000776 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1087452000777 catalytic residues [active] 1087452000778 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1087452000779 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1087452000780 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 1087452000781 ResB-like family; Region: ResB; pfam05140 1087452000782 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1087452000783 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 1087452000784 S-adenosylmethionine binding site [chemical binding]; other site 1087452000785 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1087452000786 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452000787 Walker A/P-loop; other site 1087452000788 ATP binding site [chemical binding]; other site 1087452000789 Q-loop/lid; other site 1087452000790 ABC transporter signature motif; other site 1087452000791 Walker B; other site 1087452000792 D-loop; other site 1087452000793 H-loop/switch region; other site 1087452000794 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1087452000795 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452000796 intersubunit interface [polypeptide binding]; other site 1087452000797 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1087452000798 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 1087452000799 ABC-ATPase subunit interface; other site 1087452000800 dimer interface [polypeptide binding]; other site 1087452000801 putative PBP binding regions; other site 1087452000802 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1087452000803 Protein of unknown function (DUF4229); Region: DUF4229; pfam14012 1087452000804 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1087452000805 UbiA prenyltransferase family; Region: UbiA; pfam01040 1087452000806 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 1087452000807 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1087452000808 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1087452000809 acyl-activating enzyme (AAE) consensus motif; other site 1087452000810 acyl-activating enzyme (AAE) consensus motif; other site 1087452000811 AMP binding site [chemical binding]; other site 1087452000812 active site 1087452000813 CoA binding site [chemical binding]; other site 1087452000814 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1087452000815 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1087452000816 substrate binding site [chemical binding]; other site 1087452000817 oxyanion hole (OAH) forming residues; other site 1087452000818 trimer interface [polypeptide binding]; other site 1087452000819 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1087452000820 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 1087452000821 O-succinylbenzoate synthase; Provisional; Region: PRK02901 1087452000822 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1087452000823 active site 1087452000824 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1087452000825 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1087452000826 dimer interface [polypeptide binding]; other site 1087452000827 tetramer interface [polypeptide binding]; other site 1087452000828 PYR/PP interface [polypeptide binding]; other site 1087452000829 TPP binding site [chemical binding]; other site 1087452000830 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1087452000831 TPP-binding site; other site 1087452000832 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1087452000833 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1087452000834 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1087452000835 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1087452000836 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 1087452000837 S-adenosylmethionine binding site [chemical binding]; other site 1087452000838 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1087452000839 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1087452000840 NAD(P) binding site [chemical binding]; other site 1087452000841 LDH/MDH dimer interface [polypeptide binding]; other site 1087452000842 substrate binding site [chemical binding]; other site 1087452000843 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1087452000844 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1087452000845 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1087452000846 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1087452000847 substrate binding pocket [chemical binding]; other site 1087452000848 chain length determination region; other site 1087452000849 substrate-Mg2+ binding site; other site 1087452000850 catalytic residues [active] 1087452000851 aspartate-rich region 1; other site 1087452000852 active site lid residues [active] 1087452000853 aspartate-rich region 2; other site 1087452000854 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1087452000855 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1087452000856 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1087452000857 putative homodimer interface [polypeptide binding]; other site 1087452000858 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1087452000859 heterodimer interface [polypeptide binding]; other site 1087452000860 homodimer interface [polypeptide binding]; other site 1087452000861 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1087452000862 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 1087452000863 23S rRNA interface [nucleotide binding]; other site 1087452000864 L7/L12 interface [polypeptide binding]; other site 1087452000865 putative thiostrepton binding site; other site 1087452000866 L25 interface [polypeptide binding]; other site 1087452000867 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 1087452000868 mRNA/rRNA interface [nucleotide binding]; other site 1087452000869 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 1087452000870 trimer interface [polypeptide binding]; other site 1087452000871 active site 1087452000872 G bulge; other site 1087452000873 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1087452000874 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1087452000875 FMN binding site [chemical binding]; other site 1087452000876 active site 1087452000877 substrate binding site [chemical binding]; other site 1087452000878 catalytic residue [active] 1087452000879 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 1087452000880 23S rRNA interface [nucleotide binding]; other site 1087452000881 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1087452000882 50S ribosomal protein L7/L12; Reviewed; Region: rplL; PRK00157 1087452000883 L11 interface [polypeptide binding]; other site 1087452000884 putative EF-Tu interaction site [polypeptide binding]; other site 1087452000885 putative EF-G interaction site [polypeptide binding]; other site 1087452000886 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1087452000887 anchored repeat ABC transporter, substrate-binding protein; Region: anch_rpt_subst; TIGR03772 1087452000888 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452000889 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1087452000890 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452000891 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1087452000892 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1087452000893 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 1087452000894 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1087452000895 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1087452000896 ABC-ATPase subunit interface; other site 1087452000897 dimer interface [polypeptide binding]; other site 1087452000898 putative PBP binding regions; other site 1087452000899 Ethylene insensitive 3; Region: EIN3; cl04813 1087452000900 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 1087452000901 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1087452000902 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1087452000903 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1087452000904 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 1087452000905 RPB1 interaction site [polypeptide binding]; other site 1087452000906 RPB10 interaction site [polypeptide binding]; other site 1087452000907 RPB11 interaction site [polypeptide binding]; other site 1087452000908 RPB3 interaction site [polypeptide binding]; other site 1087452000909 RPB12 interaction site [polypeptide binding]; other site 1087452000910 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1087452000911 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1087452000912 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1087452000913 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1087452000914 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1087452000915 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1087452000916 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1087452000917 G-loop; other site 1087452000918 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1087452000919 DNA binding site [nucleotide binding] 1087452000920 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1087452000921 Histidine kinase; Region: HisKA_3; pfam07730 1087452000922 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1087452000923 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1087452000924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452000925 active site 1087452000926 phosphorylation site [posttranslational modification] 1087452000927 intermolecular recognition site; other site 1087452000928 dimerization interface [polypeptide binding]; other site 1087452000929 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 1087452000930 DNA binding residues [nucleotide binding] 1087452000931 dimerization interface [polypeptide binding]; other site 1087452000932 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1087452000933 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1087452000934 Walker A/P-loop; other site 1087452000935 ATP binding site [chemical binding]; other site 1087452000936 Q-loop/lid; other site 1087452000937 ABC transporter signature motif; other site 1087452000938 Walker B; other site 1087452000939 D-loop; other site 1087452000940 H-loop/switch region; other site 1087452000941 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1087452000942 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1087452000943 TIGR03943 family protein; Region: TIGR03943 1087452000944 Predicted permease; Region: DUF318; cl17795 1087452000945 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1087452000946 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 1087452000947 FeS/SAM binding site; other site 1087452000948 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1087452000949 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1087452000950 effector binding site; other site 1087452000951 active site 1087452000952 Zn binding site [ion binding]; other site 1087452000953 glycine loop; other site 1087452000954 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 1087452000955 S17 interaction site [polypeptide binding]; other site 1087452000956 S8 interaction site; other site 1087452000957 16S rRNA interaction site [nucleotide binding]; other site 1087452000958 streptomycin interaction site [chemical binding]; other site 1087452000959 23S rRNA interaction site [nucleotide binding]; other site 1087452000960 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1087452000961 30S ribosomal protein S7; Validated; Region: PRK05302 1087452000962 elongation factor G; Reviewed; Region: PRK00007 1087452000963 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1087452000964 G1 box; other site 1087452000965 putative GEF interaction site [polypeptide binding]; other site 1087452000966 GTP/Mg2+ binding site [chemical binding]; other site 1087452000967 Switch I region; other site 1087452000968 G2 box; other site 1087452000969 G3 box; other site 1087452000970 Switch II region; other site 1087452000971 G4 box; other site 1087452000972 G5 box; other site 1087452000973 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 1087452000974 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 1087452000975 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 1087452000976 elongation factor Tu; Reviewed; Region: PRK00049 1087452000977 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1087452000978 G1 box; other site 1087452000979 GEF interaction site [polypeptide binding]; other site 1087452000980 GTP/Mg2+ binding site [chemical binding]; other site 1087452000981 Switch I region; other site 1087452000982 G2 box; other site 1087452000983 G3 box; other site 1087452000984 Switch II region; other site 1087452000985 G4 box; other site 1087452000986 G5 box; other site 1087452000987 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 1087452000988 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 1087452000989 Antibiotic Binding Site [chemical binding]; other site 1087452000990 Asp23 family; Region: Asp23; cl00574 1087452000991 Asp23 family; Region: Asp23; cl00574 1087452000992 Asp23 family; Region: Asp23; pfam03780 1087452000993 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1087452000994 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1087452000995 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1087452000996 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1087452000997 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1087452000998 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1087452000999 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1087452001000 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1087452001001 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 1087452001002 putative translocon binding site; other site 1087452001003 protein-rRNA interface [nucleotide binding]; other site 1087452001004 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1087452001005 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 1087452001006 G-X-X-G motif; other site 1087452001007 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1087452001008 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 1087452001009 23S rRNA interface [nucleotide binding]; other site 1087452001010 5S rRNA interface [nucleotide binding]; other site 1087452001011 putative antibiotic binding site [chemical binding]; other site 1087452001012 L25 interface [polypeptide binding]; other site 1087452001013 L27 interface [polypeptide binding]; other site 1087452001014 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 1087452001015 putative translocon interaction site; other site 1087452001016 23S rRNA interface [nucleotide binding]; other site 1087452001017 signal recognition particle (SRP54) interaction site; other site 1087452001018 L23 interface [polypeptide binding]; other site 1087452001019 trigger factor interaction site; other site 1087452001020 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1087452001021 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 1087452001022 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1087452001023 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1087452001024 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452001025 Walker A/P-loop; other site 1087452001026 ATP binding site [chemical binding]; other site 1087452001027 Q-loop/lid; other site 1087452001028 ABC transporter signature motif; other site 1087452001029 Walker B; other site 1087452001030 D-loop; other site 1087452001031 H-loop/switch region; other site 1087452001032 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1087452001033 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452001034 Walker A/P-loop; other site 1087452001035 ATP binding site [chemical binding]; other site 1087452001036 Q-loop/lid; other site 1087452001037 ABC transporter signature motif; other site 1087452001038 Walker B; other site 1087452001039 D-loop; other site 1087452001040 H-loop/switch region; other site 1087452001041 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1087452001042 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1087452001043 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 1087452001044 dimer interface [polypeptide binding]; other site 1087452001045 conserved gate region; other site 1087452001046 putative PBP binding loops; other site 1087452001047 ABC-ATPase subunit interface; other site 1087452001048 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1087452001049 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 1087452001050 putative PBP binding loops; other site 1087452001051 dimer interface [polypeptide binding]; other site 1087452001052 ABC-ATPase subunit interface; other site 1087452001053 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1087452001054 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1087452001055 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1087452001056 RNA binding site [nucleotide binding]; other site 1087452001057 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1087452001058 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1087452001059 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1087452001060 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1087452001061 serine transporter; Region: stp; TIGR00814 1087452001062 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1087452001063 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1087452001064 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1087452001065 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1087452001066 active site 1087452001067 homotetramer interface [polypeptide binding]; other site 1087452001068 homodimer interface [polypeptide binding]; other site 1087452001069 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1087452001070 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1087452001071 active site 1087452001072 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1087452001073 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1087452001074 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1087452001075 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1087452001076 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 1087452001077 5S rRNA interface [nucleotide binding]; other site 1087452001078 23S rRNA interface [nucleotide binding]; other site 1087452001079 L5 interface [polypeptide binding]; other site 1087452001080 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1087452001081 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1087452001082 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1087452001083 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1087452001084 23S rRNA binding site [nucleotide binding]; other site 1087452001085 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1087452001086 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1087452001087 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1087452001088 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 1087452001089 dimer interface [polypeptide binding]; other site 1087452001090 conserved gate region; other site 1087452001091 putative PBP binding loops; other site 1087452001092 ABC-ATPase subunit interface; other site 1087452001093 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1087452001094 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 1087452001095 dimer interface [polypeptide binding]; other site 1087452001096 conserved gate region; other site 1087452001097 putative PBP binding loops; other site 1087452001098 ABC-ATPase subunit interface; other site 1087452001099 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1087452001100 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 1087452001101 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1087452001102 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1087452001103 Walker A/P-loop; other site 1087452001104 ATP binding site [chemical binding]; other site 1087452001105 Q-loop/lid; other site 1087452001106 ABC transporter signature motif; other site 1087452001107 Walker B; other site 1087452001108 D-loop; other site 1087452001109 H-loop/switch region; other site 1087452001110 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1087452001111 SecY translocase; Region: SecY; pfam00344 1087452001112 adenylate kinase; Reviewed; Region: adk; PRK00279 1087452001113 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 1087452001114 AMP-binding site [chemical binding]; other site 1087452001115 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1087452001116 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1087452001117 catalytic site [active] 1087452001118 BNR repeat-like domain; Region: BNR_2; pfam13088 1087452001119 Asp-box motif; other site 1087452001120 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1087452001121 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 1087452001122 rRNA binding site [nucleotide binding]; other site 1087452001123 predicted 30S ribosome binding site; other site 1087452001124 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1087452001125 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1087452001126 30S ribosomal protein S11; Validated; Region: PRK05309 1087452001127 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1087452001128 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1087452001129 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 1087452001130 RNA binding surface [nucleotide binding]; other site 1087452001131 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1087452001132 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1087452001133 alphaNTD - beta interaction site [polypeptide binding]; other site 1087452001134 alphaNTD homodimer interface [polypeptide binding]; other site 1087452001135 alphaNTD - beta' interaction site [polypeptide binding]; other site 1087452001136 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1087452001137 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1087452001138 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1087452001139 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1087452001140 dimerization interface 3.5A [polypeptide binding]; other site 1087452001141 active site 1087452001142 Protein of unknown function (DUF690); Region: DUF690; cl04939 1087452001143 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 1087452001144 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1087452001145 active site 1087452001146 catalytic residues [active] 1087452001147 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; cl17489 1087452001148 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 1087452001149 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1087452001150 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 1087452001151 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1087452001152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452001153 Walker A/P-loop; other site 1087452001154 ATP binding site [chemical binding]; other site 1087452001155 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 1087452001156 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 1087452001157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 1087452001158 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 1087452001159 23S rRNA interface [nucleotide binding]; other site 1087452001160 L3 interface [polypeptide binding]; other site 1087452001161 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1087452001162 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 1087452001163 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 1087452001164 active site 1087452001165 substrate binding site [chemical binding]; other site 1087452001166 metal binding site [ion binding]; metal-binding site 1087452001167 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1087452001168 alanine racemase; Reviewed; Region: alr; PRK00053 1087452001169 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1087452001170 active site 1087452001171 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1087452001172 dimer interface [polypeptide binding]; other site 1087452001173 substrate binding site [chemical binding]; other site 1087452001174 catalytic residues [active] 1087452001175 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1087452001176 Predicted permease [General function prediction only]; Region: COG2985 1087452001177 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1087452001178 TrkA-C domain; Region: TrkA_C; pfam02080 1087452001179 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1087452001180 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1087452001181 Glycoprotease family; Region: Peptidase_M22; pfam00814 1087452001182 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1087452001183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1087452001184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1087452001185 Coenzyme A binding pocket [chemical binding]; other site 1087452001186 UGMP family protein; Validated; Region: PRK09604 1087452001187 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 1087452001188 oligomerisation interface [polypeptide binding]; other site 1087452001189 mobile loop; other site 1087452001190 roof hairpin; other site 1087452001191 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1087452001192 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 1087452001193 ring oligomerisation interface [polypeptide binding]; other site 1087452001194 ATP/Mg binding site [chemical binding]; other site 1087452001195 stacking interactions; other site 1087452001196 hinge regions; other site 1087452001197 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 1087452001198 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1087452001199 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 1087452001200 DNA binding residues [nucleotide binding] 1087452001201 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1087452001202 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 1087452001203 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 1087452001204 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 1087452001205 active site 1087452001206 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 1087452001207 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 1087452001208 phosphate binding site [ion binding]; other site 1087452001209 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1087452001210 GMP synthase; Reviewed; Region: guaA; PRK00074 1087452001211 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1087452001212 AMP/PPi binding site [chemical binding]; other site 1087452001213 candidate oxyanion hole; other site 1087452001214 catalytic triad [active] 1087452001215 potential glutamine specificity residues [chemical binding]; other site 1087452001216 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 1087452001217 ATP Binding subdomain [chemical binding]; other site 1087452001218 Ligand Binding sites [chemical binding]; other site 1087452001219 Dimerization subdomain; other site 1087452001220 PspC domain; Region: PspC; cl00864 1087452001221 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1087452001222 PspC domain; Region: PspC; pfam04024 1087452001223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1087452001224 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1087452001225 ATP binding site [chemical binding]; other site 1087452001226 Mg2+ binding site [ion binding]; other site 1087452001227 G-X-G motif; other site 1087452001228 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1087452001229 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452001230 active site 1087452001231 phosphorylation site [posttranslational modification] 1087452001232 intermolecular recognition site; other site 1087452001233 dimerization interface [polypeptide binding]; other site 1087452001234 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 1087452001235 dimerization interface [polypeptide binding]; other site 1087452001236 DNA binding residues [nucleotide binding] 1087452001237 AMIN domain; Region: AMIN; pfam11741 1087452001238 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 1087452001239 putative dimer interface [polypeptide binding]; other site 1087452001240 putative [2Fe-2S] cluster binding site [ion binding]; other site 1087452001241 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 1087452001242 dimer interface [polypeptide binding]; other site 1087452001243 conserved gate region; other site 1087452001244 ABC-ATPase subunit interface; other site 1087452001245 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1087452001246 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1087452001247 Walker A/P-loop; other site 1087452001248 ATP binding site [chemical binding]; other site 1087452001249 Q-loop/lid; other site 1087452001250 ABC transporter signature motif; other site 1087452001251 Walker B; other site 1087452001252 D-loop; other site 1087452001253 H-loop/switch region; other site 1087452001254 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1087452001255 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1087452001256 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1087452001257 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1087452001258 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452001259 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1087452001260 intersubunit interface [polypeptide binding]; other site 1087452001261 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1087452001262 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1087452001263 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1087452001264 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 1087452001265 ABC-ATPase subunit interface; other site 1087452001266 dimer interface [polypeptide binding]; other site 1087452001267 putative PBP binding regions; other site 1087452001268 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1087452001269 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1087452001270 ABC-ATPase subunit interface; other site 1087452001271 dimer interface [polypeptide binding]; other site 1087452001272 putative PBP binding regions; other site 1087452001273 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1087452001274 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1087452001275 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1087452001276 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 1087452001277 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1087452001278 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 1087452001279 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1087452001280 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1087452001281 homodimer interface [polypeptide binding]; other site 1087452001282 NADP binding site [chemical binding]; other site 1087452001283 substrate binding site [chemical binding]; other site 1087452001284 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 1087452001285 active site 1087452001286 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1087452001287 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1087452001288 Htaa; Region: HtaA; pfam04213 1087452001289 Htaa; Region: HtaA; pfam04213 1087452001290 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1087452001291 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452001292 intersubunit interface [polypeptide binding]; other site 1087452001293 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1087452001294 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 1087452001295 ABC-ATPase subunit interface; other site 1087452001296 dimer interface [polypeptide binding]; other site 1087452001297 putative PBP binding regions; other site 1087452001298 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1087452001299 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452001300 Walker A/P-loop; other site 1087452001301 ATP binding site [chemical binding]; other site 1087452001302 Q-loop/lid; other site 1087452001303 ABC transporter signature motif; other site 1087452001304 Walker B; other site 1087452001305 D-loop; other site 1087452001306 H-loop/switch region; other site 1087452001307 Htaa; Region: HtaA; pfam04213 1087452001308 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1087452001309 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1087452001310 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1087452001311 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 1087452001312 putative substrate translocation pore; other site 1087452001313 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1087452001314 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1087452001315 DNA binding residues [nucleotide binding] 1087452001316 dimer interface [polypeptide binding]; other site 1087452001317 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1087452001318 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1087452001319 putative catalytic site [active] 1087452001320 putative metal binding site [ion binding]; other site 1087452001321 putative phosphate binding site [ion binding]; other site 1087452001322 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1087452001323 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1087452001324 active site 1087452001325 HIGH motif; other site 1087452001326 dimer interface [polypeptide binding]; other site 1087452001327 KMSKS motif; other site 1087452001328 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1087452001329 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1087452001330 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1087452001331 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 1087452001332 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452001333 active site 1087452001334 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1087452001335 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 1087452001336 non-specific DNA binding site [nucleotide binding]; other site 1087452001337 salt bridge; other site 1087452001338 sequence-specific DNA binding site [nucleotide binding]; other site 1087452001339 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 1087452001340 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1087452001341 active site 1087452001342 substrate binding site [chemical binding]; other site 1087452001343 metal binding site [ion binding]; metal-binding site 1087452001344 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1087452001345 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 1087452001346 metal binding site [ion binding]; metal-binding site 1087452001347 putative dimer interface [polypeptide binding]; other site 1087452001348 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 1087452001349 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1087452001350 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1087452001351 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1087452001352 pyruvate carboxylase; Reviewed; Region: PRK12999 1087452001353 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1087452001354 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1087452001355 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1087452001356 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1087452001357 active site 1087452001358 catalytic residues [active] 1087452001359 metal binding site [ion binding]; metal-binding site 1087452001360 homodimer binding site [polypeptide binding]; other site 1087452001361 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 1087452001362 carboxyltransferase (CT) interaction site; other site 1087452001363 biotinylation site [posttranslational modification]; other site 1087452001364 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1087452001365 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 1087452001366 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 1087452001367 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1087452001368 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1087452001369 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1087452001370 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1087452001371 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 1087452001372 carboxyltransferase (CT) interaction site; other site 1087452001373 biotinylation site [posttranslational modification]; other site 1087452001374 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1087452001375 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 1087452001376 active site residue [active] 1087452001377 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1087452001378 active site residue [active] 1087452001379 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1087452001380 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 1087452001381 Maf-like protein; Region: Maf; pfam02545 1087452001382 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 1087452001383 active site 1087452001384 dimer interface [polypeptide binding]; other site 1087452001385 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 1087452001386 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1087452001387 substrate binding site [chemical binding]; other site 1087452001388 ATP binding site [chemical binding]; other site 1087452001389 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1087452001390 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1087452001391 DNA binding site [nucleotide binding] 1087452001392 domain linker motif; other site 1087452001393 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia; Region: PBP1_LacI_like_13; cd06299 1087452001394 putative ligand binding site [chemical binding]; other site 1087452001395 dimerization interface [polypeptide binding]; other site 1087452001396 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 1087452001397 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1087452001398 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1087452001399 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1087452001400 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1087452001401 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1087452001402 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1087452001403 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1087452001404 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1087452001405 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1087452001406 ATP-grasp domain; Region: ATP-grasp; pfam02222 1087452001407 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1087452001408 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 1087452001409 putative active site [active] 1087452001410 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1087452001411 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 1087452001412 dimer interface [polypeptide binding]; other site 1087452001413 conserved gate region; other site 1087452001414 putative PBP binding loops; other site 1087452001415 ABC-ATPase subunit interface; other site 1087452001416 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 1087452001417 dimer interface [polypeptide binding]; other site 1087452001418 conserved gate region; other site 1087452001419 putative PBP binding loops; other site 1087452001420 ABC-ATPase subunit interface; other site 1087452001421 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1087452001422 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1087452001423 TIGR03089 family protein; Region: TIGR03089 1087452001424 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1087452001425 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1087452001426 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1087452001427 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1087452001428 Probable Catalytic site; other site 1087452001429 metal-binding site 1087452001430 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 1087452001431 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1087452001432 active site 1087452001433 Substrate binding site; other site 1087452001434 Mg++ binding site; other site 1087452001435 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 1087452001436 putative trimer interface [polypeptide binding]; other site 1087452001437 putative CoA binding site [chemical binding]; other site 1087452001438 Transcription factor WhiB; Region: Whib; pfam02467 1087452001439 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 1087452001440 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 1087452001441 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1087452001442 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 1087452001443 active site 1087452001444 substrate binding site [chemical binding]; other site 1087452001445 metal binding site [ion binding]; metal-binding site 1087452001446 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1087452001447 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1087452001448 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 1087452001449 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1087452001450 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1087452001451 homotetramer interface [polypeptide binding]; other site 1087452001452 ligand binding site [chemical binding]; other site 1087452001453 catalytic site [active] 1087452001454 NAD binding site [chemical binding]; other site 1087452001455 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 1087452001456 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1087452001457 TMP-binding site; other site 1087452001458 ATP-binding site [chemical binding]; other site 1087452001459 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1087452001460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452001461 active site 1087452001462 phosphorylation site [posttranslational modification] 1087452001463 intermolecular recognition site; other site 1087452001464 dimerization interface [polypeptide binding]; other site 1087452001465 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 1087452001466 DNA binding site [nucleotide binding] 1087452001467 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1087452001468 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 1087452001469 dimerization interface [polypeptide binding]; other site 1087452001470 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 1087452001471 dimer interface [polypeptide binding]; other site 1087452001472 phosphorylation site [posttranslational modification] 1087452001473 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1087452001474 ATP binding site [chemical binding]; other site 1087452001475 Mg2+ binding site [ion binding]; other site 1087452001476 G-X-G motif; other site 1087452001477 lipoprotein LpqB; Provisional; Region: PRK13616 1087452001478 Sporulation and spore germination; Region: Germane; pfam10646 1087452001479 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1087452001480 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452001481 active site 1087452001482 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 1087452001483 30S subunit binding site; other site 1087452001484 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1087452001485 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 1087452001486 ATP binding site [chemical binding]; other site 1087452001487 putative Mg++ binding site [ion binding]; other site 1087452001488 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1087452001489 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; cl17351 1087452001490 nucleotide binding region [chemical binding]; other site 1087452001491 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1087452001492 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 1087452001493 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 1087452001494 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1087452001495 FAD binding pocket [chemical binding]; other site 1087452001496 FAD binding motif [chemical binding]; other site 1087452001497 phosphate binding motif [ion binding]; other site 1087452001498 beta-alpha-beta structure motif; other site 1087452001499 NAD binding pocket [chemical binding]; other site 1087452001500 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1087452001501 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 1087452001502 catalytic loop [active] 1087452001503 iron binding site [ion binding]; other site 1087452001504 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1087452001505 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1087452001506 putative di-iron ligands [ion binding]; other site 1087452001507 Predicted GTPases [General function prediction only]; Region: COG1162 1087452001508 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1087452001509 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1087452001510 GTP/Mg2+ binding site [chemical binding]; other site 1087452001511 G4 box; other site 1087452001512 G5 box; other site 1087452001513 G1 box; other site 1087452001514 Switch I region; other site 1087452001515 G2 box; other site 1087452001516 G3 box; other site 1087452001517 Switch II region; other site 1087452001518 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 1087452001519 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1087452001520 hinge; other site 1087452001521 active site 1087452001522 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1087452001523 putative deacylase active site [active] 1087452001524 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 1087452001525 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1087452001526 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 1087452001527 DNA binding residues [nucleotide binding] 1087452001528 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 1087452001529 Transcription factor WhiB; Region: Whib; pfam02467 1087452001530 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1087452001531 active site 1087452001532 catalytic triad [active] 1087452001533 oxyanion hole [active] 1087452001534 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1087452001535 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 1087452001536 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1087452001537 ATP binding site [chemical binding]; other site 1087452001538 Mg++ binding site [ion binding]; other site 1087452001539 motif III; other site 1087452001540 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 1087452001541 nucleotide binding region [chemical binding]; other site 1087452001542 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 1087452001543 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 1087452001544 TIGR02569 family protein; Region: TIGR02569_actnb 1087452001545 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1087452001546 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1087452001547 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1087452001548 Part of AAA domain; Region: AAA_19; pfam13245 1087452001549 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1087452001550 Ion channel; Region: Ion_trans_2; pfam07885 1087452001551 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1087452001552 TrkA-N domain; Region: TrkA_N; pfam02254 1087452001553 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1087452001554 putative NADH binding site [chemical binding]; other site 1087452001555 putative active site [active] 1087452001556 nudix motif; other site 1087452001557 putative metal binding site [ion binding]; other site 1087452001558 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1087452001559 Part of AAA domain; Region: AAA_19; pfam13245 1087452001560 Family description; Region: UvrD_C_2; pfam13538 1087452001561 HRDC domain; Region: HRDC; pfam00570 1087452001562 Protein of unknown function DUF45; Region: DUF45; cl00636 1087452001563 putative hydrolase; Region: TIGR03624 1087452001564 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1087452001565 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 1087452001566 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 1087452001567 hypothetical protein; Validated; Region: PRK00068 1087452001568 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1087452001569 sequence-specific DNA binding site [nucleotide binding]; other site 1087452001570 salt bridge; other site 1087452001571 Abi-like protein; Region: Abi_2; pfam07751 1087452001572 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 1087452001573 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1087452001574 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1087452001575 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1087452001576 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1087452001577 Predicted membrane protein [Function unknown]; Region: COG2311 1087452001578 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 1087452001579 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1087452001580 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1087452001581 acyl-activating enzyme (AAE) consensus motif; other site 1087452001582 AMP binding site [chemical binding]; other site 1087452001583 active site 1087452001584 CoA binding site [chemical binding]; other site 1087452001585 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1087452001586 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 1087452001587 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 1087452001588 putative trimer interface [polypeptide binding]; other site 1087452001589 putative CoA binding site [chemical binding]; other site 1087452001590 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 1087452001591 putative trimer interface [polypeptide binding]; other site 1087452001592 putative CoA binding site [chemical binding]; other site 1087452001593 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1087452001594 oxaloacetate decarboxylase; Provisional; Region: PRK12330 1087452001595 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1087452001596 active site 1087452001597 catalytic residues [active] 1087452001598 metal binding site [ion binding]; metal-binding site 1087452001599 homodimer binding site [polypeptide binding]; other site 1087452001600 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1087452001601 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1087452001602 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1087452001603 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 1087452001604 carboxyltransferase (CT) interaction site; other site 1087452001605 biotinylation site [posttranslational modification]; other site 1087452001606 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1087452001607 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1087452001608 active site 1087452001609 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1087452001610 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1087452001611 active site 1087452001612 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1087452001613 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1087452001614 RF-1 domain; Region: RF-1; pfam00472 1087452001615 topology modulation protein; Provisional; Region: PRK07261 1087452001616 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; cd02019 1087452001617 active site 1087452001618 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1087452001619 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1087452001620 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1087452001621 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452001622 Walker A/P-loop; other site 1087452001623 ATP binding site [chemical binding]; other site 1087452001624 Q-loop/lid; other site 1087452001625 ABC transporter signature motif; other site 1087452001626 Walker B; other site 1087452001627 D-loop; other site 1087452001628 H-loop/switch region; other site 1087452001629 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1087452001630 FtsX-like permease family; Region: FtsX; pfam02687 1087452001631 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 1087452001632 SmpB-tmRNA interface; other site 1087452001633 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 1087452001634 active site clefts [active] 1087452001635 zinc binding site [ion binding]; other site 1087452001636 dimer interface [polypeptide binding]; other site 1087452001637 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1087452001638 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452001639 intersubunit interface [polypeptide binding]; other site 1087452001640 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1087452001641 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 1087452001642 ABC-ATPase subunit interface; other site 1087452001643 dimer interface [polypeptide binding]; other site 1087452001644 putative PBP binding regions; other site 1087452001645 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 1087452001646 ABC-ATPase subunit interface; other site 1087452001647 dimer interface [polypeptide binding]; other site 1087452001648 putative PBP binding regions; other site 1087452001649 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1087452001650 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452001651 Walker A/P-loop; other site 1087452001652 ATP binding site [chemical binding]; other site 1087452001653 Q-loop/lid; other site 1087452001654 ABC transporter signature motif; other site 1087452001655 Walker B; other site 1087452001656 D-loop; other site 1087452001657 H-loop/switch region; other site 1087452001658 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 1087452001659 catalytic residue [active] 1087452001660 homodimer interface [polypeptide binding]; other site 1087452001661 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 1087452001662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452001663 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 1087452001664 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1087452001665 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1087452001666 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 1087452001667 ATP binding site [chemical binding]; other site 1087452001668 putative Mg++ binding site [ion binding]; other site 1087452001669 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 1087452001670 nucleotide binding region [chemical binding]; other site 1087452001671 ATP-binding site [chemical binding]; other site 1087452001672 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1087452001673 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1087452001674 Protein of unknown function (DUF3235); Region: DUF3235; pfam11574 1087452001675 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 1087452001676 DNA-binding site [nucleotide binding]; DNA binding site 1087452001677 RNA-binding motif; other site 1087452001678 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 1087452001679 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1087452001680 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 1087452001681 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1087452001682 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1087452001683 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1087452001684 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 1087452001685 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 1087452001686 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1087452001687 catalytic residue [active] 1087452001688 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1087452001689 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1087452001690 dimer interface [polypeptide binding]; other site 1087452001691 active site 1087452001692 citrylCoA binding site [chemical binding]; other site 1087452001693 NADH binding [chemical binding]; other site 1087452001694 cationic pore residues; other site 1087452001695 oxalacetate/citrate binding site [chemical binding]; other site 1087452001696 coenzyme A binding site [chemical binding]; other site 1087452001697 catalytic triad [active] 1087452001698 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1087452001699 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 1087452001700 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1087452001701 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1087452001702 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 1087452001703 E-class dimer interface [polypeptide binding]; other site 1087452001704 P-class dimer interface [polypeptide binding]; other site 1087452001705 active site 1087452001706 Cu2+ binding site [ion binding]; other site 1087452001707 Zn2+ binding site [ion binding]; other site 1087452001708 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1087452001709 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1087452001710 active site 1087452001711 catalytic tetrad [active] 1087452001712 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1087452001713 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1087452001714 substrate binding site [chemical binding]; other site 1087452001715 oxyanion hole (OAH) forming residues; other site 1087452001716 trimer interface [polypeptide binding]; other site 1087452001717 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1087452001718 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1087452001719 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1087452001720 Na binding site [ion binding]; other site 1087452001721 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 1087452001722 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1087452001723 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1087452001724 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1087452001725 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1087452001726 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1087452001727 multidrug efflux protein NorA; Provisional; Region: PRK00187 1087452001728 cation binding site [ion binding]; other site 1087452001729 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1087452001730 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 1087452001731 dimer interface [polypeptide binding]; other site 1087452001732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452001733 catalytic residue [active] 1087452001734 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1087452001735 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1087452001736 catalytic residue [active] 1087452001737 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1087452001738 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1087452001739 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1087452001740 substrate binding pocket [chemical binding]; other site 1087452001741 active site 1087452001742 iron coordination sites [ion binding]; other site 1087452001743 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1087452001744 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1087452001745 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1087452001746 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 1087452001747 dimer interface [polypeptide binding]; other site 1087452001748 conserved gate region; other site 1087452001749 putative PBP binding loops; other site 1087452001750 ABC-ATPase subunit interface; other site 1087452001751 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1087452001752 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1087452001753 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452001754 Walker A/P-loop; other site 1087452001755 ATP binding site [chemical binding]; other site 1087452001756 Q-loop/lid; other site 1087452001757 ABC transporter signature motif; other site 1087452001758 Walker B; other site 1087452001759 D-loop; other site 1087452001760 H-loop/switch region; other site 1087452001761 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452001762 Walker A/P-loop; other site 1087452001763 ATP binding site [chemical binding]; other site 1087452001764 Q-loop/lid; other site 1087452001765 ABC transporter signature motif; other site 1087452001766 Walker B; other site 1087452001767 D-loop; other site 1087452001768 H-loop/switch region; other site 1087452001769 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1087452001770 active site 1087452001771 SAM binding site [chemical binding]; other site 1087452001772 homodimer interface [polypeptide binding]; other site 1087452001773 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1087452001774 catalytic residues [active] 1087452001775 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1087452001776 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1087452001777 folate binding site [chemical binding]; other site 1087452001778 NADP+ binding site [chemical binding]; other site 1087452001779 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1087452001780 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1087452001781 dimerization interface [polypeptide binding]; other site 1087452001782 active site 1087452001783 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1087452001784 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1087452001785 active site 1087452001786 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 1087452001787 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 1087452001788 ATP binding site [chemical binding]; other site 1087452001789 putative Mg++ binding site [ion binding]; other site 1087452001790 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 1087452001791 nucleotide binding region [chemical binding]; other site 1087452001792 ATP-binding site [chemical binding]; other site 1087452001793 DEAD/H associated; Region: DEAD_assoc; pfam08494 1087452001794 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 1087452001795 active site 1087452001796 SUMO-1 interface [polypeptide binding]; other site 1087452001797 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1087452001798 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 1087452001799 putative DNA binding site [nucleotide binding]; other site 1087452001800 putative catalytic residues [active] 1087452001801 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1087452001802 hypothetical protein; Provisional; Region: PRK11770 1087452001803 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1087452001804 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1087452001805 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1087452001806 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 1087452001807 active site 1087452001808 dimer interface [polypeptide binding]; other site 1087452001809 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 1087452001810 dimer interface [polypeptide binding]; other site 1087452001811 active site 1087452001812 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1087452001813 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1087452001814 tetramerization interface [polypeptide binding]; other site 1087452001815 NAD(P) binding site [chemical binding]; other site 1087452001816 catalytic residues [active] 1087452001817 hypothetical protein; Provisional; Region: PRK07857 1087452001818 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1087452001819 Part of AAA domain; Region: AAA_19; pfam13245 1087452001820 Family description; Region: UvrD_C_2; pfam13538 1087452001821 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1087452001822 Peptidase family M23; Region: Peptidase_M23; pfam01551 1087452001823 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1087452001824 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1087452001825 active site 1087452001826 substrate binding site [chemical binding]; other site 1087452001827 cosubstrate binding site; other site 1087452001828 catalytic site [active] 1087452001829 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1087452001830 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 1087452001831 purine monophosphate binding site [chemical binding]; other site 1087452001832 dimer interface [polypeptide binding]; other site 1087452001833 putative catalytic residues [active] 1087452001834 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1087452001835 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1087452001836 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1087452001837 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1087452001838 Walker A/P-loop; other site 1087452001839 ATP binding site [chemical binding]; other site 1087452001840 Q-loop/lid; other site 1087452001841 ABC transporter signature motif; other site 1087452001842 Walker B; other site 1087452001843 D-loop; other site 1087452001844 H-loop/switch region; other site 1087452001845 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1087452001846 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 1087452001847 substrate binding pocket [chemical binding]; other site 1087452001848 membrane-bound complex binding site; other site 1087452001849 hinge residues; other site 1087452001850 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1087452001851 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 1087452001852 dimer interface [polypeptide binding]; other site 1087452001853 conserved gate region; other site 1087452001854 putative PBP binding loops; other site 1087452001855 ABC-ATPase subunit interface; other site 1087452001856 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 1087452001857 dimer interface [polypeptide binding]; other site 1087452001858 conserved gate region; other site 1087452001859 putative PBP binding loops; other site 1087452001860 ABC-ATPase subunit interface; other site 1087452001861 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1087452001862 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1087452001863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452001864 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 1087452001865 30S ribosomal protein S18; Provisional; Region: PRK13401 1087452001866 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1087452001867 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1087452001868 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1087452001869 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1087452001870 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1087452001871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1087452001872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452001873 active site 1087452001874 phosphorylation site [posttranslational modification] 1087452001875 intermolecular recognition site; other site 1087452001876 dimerization interface [polypeptide binding]; other site 1087452001877 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 1087452001878 DNA binding site [nucleotide binding] 1087452001879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1087452001880 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 1087452001881 dimerization interface [polypeptide binding]; other site 1087452001882 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 1087452001883 dimer interface [polypeptide binding]; other site 1087452001884 phosphorylation site [posttranslational modification] 1087452001885 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1087452001886 ATP binding site [chemical binding]; other site 1087452001887 Mg2+ binding site [ion binding]; other site 1087452001888 G-X-G motif; other site 1087452001889 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1087452001890 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1087452001891 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 1087452001892 protein binding site [polypeptide binding]; other site 1087452001893 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 1087452001894 MPT binding site; other site 1087452001895 trimer interface [polypeptide binding]; other site 1087452001896 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1087452001897 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1087452001898 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1087452001899 UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: GalU; COG1210 1087452001900 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1087452001901 active site 1087452001902 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1087452001903 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 1087452001904 dimer interface [polypeptide binding]; other site 1087452001905 putative functional site; other site 1087452001906 putative MPT binding site; other site 1087452001907 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1087452001908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1087452001909 Coenzyme A binding pocket [chemical binding]; other site 1087452001910 Predicted membrane protein [Function unknown]; Region: COG2259 1087452001911 Predicted integral membrane protein [Function unknown]; Region: COG5660 1087452001912 Putative zinc-finger; Region: zf-HC2; pfam13490 1087452001913 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1087452001914 BCCT family transporter; Region: BCCT; pfam02028 1087452001915 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1087452001916 Predicted methyltransferases [General function prediction only]; Region: COG0313 1087452001917 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1087452001918 putative SAM binding site [chemical binding]; other site 1087452001919 putative homodimer interface [polypeptide binding]; other site 1087452001920 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 1087452001921 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1087452001922 active site 1087452001923 HIGH motif; other site 1087452001924 KMSKS motif; other site 1087452001925 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1087452001926 tRNA binding surface [nucleotide binding]; other site 1087452001927 anticodon binding site; other site 1087452001928 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1087452001929 active site 1087452001930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 1087452001931 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1087452001932 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1087452001933 G5 domain; Region: G5; pfam07501 1087452001934 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1087452001935 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1087452001936 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 1087452001937 S-adenosylmethionine binding site [chemical binding]; other site 1087452001938 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 1087452001939 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1087452001940 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1087452001941 ABC transporter; Region: ABC_tran_2; pfam12848 1087452001942 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1087452001943 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1087452001944 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1087452001945 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1087452001946 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1087452001947 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1087452001948 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1087452001949 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1087452001950 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1087452001951 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1087452001952 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1087452001953 G1 box; other site 1087452001954 putative GEF interaction site [polypeptide binding]; other site 1087452001955 GTP/Mg2+ binding site [chemical binding]; other site 1087452001956 Switch I region; other site 1087452001957 G2 box; other site 1087452001958 G3 box; other site 1087452001959 Switch II region; other site 1087452001960 G4 box; other site 1087452001961 G5 box; other site 1087452001962 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 1087452001963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1087452001964 light-dependent protochlorophyllide reductase; Region: LPOR; TIGR01289 1087452001965 NAD(P) binding site [chemical binding]; other site 1087452001966 active site 1087452001967 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 1087452001968 putative active site [active] 1087452001969 catalytic residue [active] 1087452001970 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 1087452001971 FMN binding site [chemical binding]; other site 1087452001972 substrate binding site [chemical binding]; other site 1087452001973 putative catalytic residue [active] 1087452001974 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 1087452001975 putative active site [active] 1087452001976 catalytic residue [active] 1087452001977 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1087452001978 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1087452001979 5S rRNA interface [nucleotide binding]; other site 1087452001980 CTC domain interface [polypeptide binding]; other site 1087452001981 L16 interface [polypeptide binding]; other site 1087452001982 pullulanase, type I; Region: pulA_typeI; TIGR02104 1087452001983 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1087452001984 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1087452001985 Ca binding site [ion binding]; other site 1087452001986 active site 1087452001987 catalytic site [active] 1087452001988 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1087452001989 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 1087452001990 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452001991 active site 1087452001992 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 1087452001993 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1087452001994 Substrate binding site; other site 1087452001995 Mg++ binding site; other site 1087452001996 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 1087452001997 active site 1087452001998 substrate binding site [chemical binding]; other site 1087452001999 CoA binding site [chemical binding]; other site 1087452002000 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1087452002001 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1087452002002 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1087452002003 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 1087452002004 gating phenylalanine in ion channel; other site 1087452002005 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1087452002006 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452002007 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1087452002008 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1087452002009 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 1087452002010 ATP binding site [chemical binding]; other site 1087452002011 putative Mg++ binding site [ion binding]; other site 1087452002012 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 1087452002013 nucleotide binding region [chemical binding]; other site 1087452002014 ATP-binding site [chemical binding]; other site 1087452002015 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1087452002016 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1087452002017 Spore germination protein; Region: Spore_permease; cl17796 1087452002018 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 1087452002019 homodimer interface [polypeptide binding]; other site 1087452002020 metal binding site [ion binding]; metal-binding site 1087452002021 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 1087452002022 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1087452002023 enolase; Provisional; Region: eno; PRK00077 1087452002024 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 1087452002025 dimer interface [polypeptide binding]; other site 1087452002026 metal binding site [ion binding]; metal-binding site 1087452002027 substrate binding pocket [chemical binding]; other site 1087452002028 Septum formation initiator; Region: DivIC; pfam04977 1087452002029 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1087452002030 Uncharacterized conserved protein [Function unknown]; Region: COG1507 1087452002031 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1087452002032 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1087452002033 Helix-turn-helix domain; Region: HTH_18; pfam12833 1087452002034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1087452002035 Bax inhibitor 1 like; Region: BaxI_1; cl17691 1087452002036 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1087452002037 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1087452002038 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1087452002039 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 1087452002040 mycothiol conjugate amidase Mca; Region: mycothiol_Mca; TIGR03446 1087452002041 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 1087452002042 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1087452002043 catalytic residue [active] 1087452002044 putative FPP diphosphate binding site; other site 1087452002045 putative FPP binding hydrophobic cleft; other site 1087452002046 dimer interface [polypeptide binding]; other site 1087452002047 putative IPP diphosphate binding site; other site 1087452002048 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 1087452002049 pantothenate kinase; Provisional; Region: PRK05439 1087452002050 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1087452002051 ATP-binding site [chemical binding]; other site 1087452002052 CoA-binding site [chemical binding]; other site 1087452002053 Mg2+-binding site [ion binding]; other site 1087452002054 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1087452002055 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 1087452002056 dimer interface [polypeptide binding]; other site 1087452002057 active site 1087452002058 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1087452002059 folate binding site [chemical binding]; other site 1087452002060 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1087452002061 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 1087452002062 putative substrate translocation pore; other site 1087452002063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1087452002064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452002065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1087452002066 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1087452002067 dimerization interface [polypeptide binding]; other site 1087452002068 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1087452002069 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1087452002070 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1087452002071 Coenzyme A binding pocket [chemical binding]; other site 1087452002072 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 1087452002073 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1087452002074 putative substrate translocation pore; other site 1087452002075 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 1087452002076 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452002077 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1087452002078 Class II fumarases; Region: Fumarase_classII; cd01362 1087452002079 active site 1087452002080 tetramer interface [polypeptide binding]; other site 1087452002081 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 1087452002082 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1087452002083 putative active site [active] 1087452002084 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 1087452002085 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1087452002086 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1087452002087 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 1087452002088 generic binding surface II; other site 1087452002089 generic binding surface I; other site 1087452002090 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1087452002091 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1087452002092 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1087452002093 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1087452002094 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1087452002095 GTP-binding protein YchF; Reviewed; Region: PRK09601 1087452002096 YchF GTPase; Region: YchF; cd01900 1087452002097 G1 box; other site 1087452002098 GTP/Mg2+ binding site [chemical binding]; other site 1087452002099 Switch I region; other site 1087452002100 G2 box; other site 1087452002101 Switch II region; other site 1087452002102 G3 box; other site 1087452002103 G4 box; other site 1087452002104 G5 box; other site 1087452002105 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 1087452002106 Alkylmercury lyase; Region: MerB; pfam03243 1087452002107 Protein of unknown function, DUF488; Region: DUF488; pfam04343 1087452002108 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1087452002109 PhnA protein; Region: PhnA; pfam03831 1087452002110 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1087452002111 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1087452002112 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452002113 Walker A/P-loop; other site 1087452002114 ATP binding site [chemical binding]; other site 1087452002115 Q-loop/lid; other site 1087452002116 ABC transporter signature motif; other site 1087452002117 Walker B; other site 1087452002118 D-loop; other site 1087452002119 H-loop/switch region; other site 1087452002120 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1087452002121 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1087452002122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452002123 Walker A/P-loop; other site 1087452002124 ATP binding site [chemical binding]; other site 1087452002125 Q-loop/lid; other site 1087452002126 ABC transporter signature motif; other site 1087452002127 Walker B; other site 1087452002128 D-loop; other site 1087452002129 H-loop/switch region; other site 1087452002130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 1087452002131 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1087452002132 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1087452002133 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1087452002134 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 1087452002135 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1087452002136 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1087452002137 Walker A/P-loop; other site 1087452002138 ATP binding site [chemical binding]; other site 1087452002139 Q-loop/lid; other site 1087452002140 ABC transporter signature motif; other site 1087452002141 Walker B; other site 1087452002142 D-loop; other site 1087452002143 H-loop/switch region; other site 1087452002144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452002145 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1087452002146 Walker A/P-loop; other site 1087452002147 ATP binding site [chemical binding]; other site 1087452002148 Q-loop/lid; other site 1087452002149 ABC transporter signature motif; other site 1087452002150 Walker B; other site 1087452002151 D-loop; other site 1087452002152 H-loop/switch region; other site 1087452002153 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1087452002154 hypothetical protein; Provisional; Region: PRK06547 1087452002155 Predicted kinase [General function prediction only]; Region: COG0645 1087452002156 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_31; cd04690 1087452002157 nudix motif; other site 1087452002158 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1087452002159 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1087452002160 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1087452002161 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 1087452002162 dimer interface [polypeptide binding]; other site 1087452002163 conserved gate region; other site 1087452002164 ABC-ATPase subunit interface; other site 1087452002165 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1087452002166 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 1087452002167 dimer interface [polypeptide binding]; other site 1087452002168 conserved gate region; other site 1087452002169 putative PBP binding loops; other site 1087452002170 ABC-ATPase subunit interface; other site 1087452002171 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1087452002172 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452002173 Walker A/P-loop; other site 1087452002174 ATP binding site [chemical binding]; other site 1087452002175 Q-loop/lid; other site 1087452002176 ABC transporter signature motif; other site 1087452002177 Walker B; other site 1087452002178 D-loop; other site 1087452002179 H-loop/switch region; other site 1087452002180 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1087452002181 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452002182 Walker A/P-loop; other site 1087452002183 ATP binding site [chemical binding]; other site 1087452002184 Q-loop/lid; other site 1087452002185 ABC transporter signature motif; other site 1087452002186 Walker B; other site 1087452002187 D-loop; other site 1087452002188 H-loop/switch region; other site 1087452002189 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1087452002190 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1087452002191 cleavage site 1087452002192 active site 1087452002193 substrate binding sites [chemical binding]; other site 1087452002194 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1087452002195 ArsC family; Region: ArsC; pfam03960 1087452002196 catalytic residues [active] 1087452002197 Protein of unknown function (DUF402); Region: DUF402; cl00979 1087452002198 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1087452002199 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1087452002200 G1 box; other site 1087452002201 GTP/Mg2+ binding site [chemical binding]; other site 1087452002202 G2 box; other site 1087452002203 Switch I region; other site 1087452002204 G3 box; other site 1087452002205 Switch II region; other site 1087452002206 G4 box; other site 1087452002207 G5 box; other site 1087452002208 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 1087452002209 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 1087452002210 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 1087452002211 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1087452002212 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1087452002213 Ferredoxin [Energy production and conversion]; Region: COG1146 1087452002214 4Fe-4S binding domain; Region: Fer4; pfam00037 1087452002215 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 1087452002216 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 1087452002217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452002218 homodimer interface [polypeptide binding]; other site 1087452002219 catalytic residue [active] 1087452002220 Predicted membrane protein [Function unknown]; Region: COG2246 1087452002221 GtrA-like protein; Region: GtrA; pfam04138 1087452002222 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1087452002223 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 1087452002224 active site 1087452002225 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1087452002226 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1087452002227 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 1087452002228 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1087452002229 putative trimer interface [polypeptide binding]; other site 1087452002230 putative CoA binding site [chemical binding]; other site 1087452002231 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1087452002232 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1087452002233 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 1087452002234 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 1087452002235 putative trimer interface [polypeptide binding]; other site 1087452002236 putative CoA binding site [chemical binding]; other site 1087452002237 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 1087452002238 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 1087452002239 metal binding site [ion binding]; metal-binding site 1087452002240 putative dimer interface [polypeptide binding]; other site 1087452002241 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1087452002242 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 1087452002243 dihydropteroate synthase; Region: DHPS; TIGR01496 1087452002244 substrate binding pocket [chemical binding]; other site 1087452002245 dimer interface [polypeptide binding]; other site 1087452002246 inhibitor binding site; inhibition site 1087452002247 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1087452002248 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1087452002249 Ligand binding site; other site 1087452002250 Putative Catalytic site; other site 1087452002251 DXD motif; other site 1087452002252 DivIVA domain; Region: DivI1A_domain; TIGR03544 1087452002253 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 1087452002254 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1087452002255 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 1087452002256 S-adenosylmethionine binding site [chemical binding]; other site 1087452002257 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1087452002258 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1087452002259 active site 1087452002260 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1087452002261 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1087452002262 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 1087452002263 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 1087452002264 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 1087452002265 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1087452002266 ligand binding site; other site 1087452002267 oligomer interface; other site 1087452002268 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 1087452002269 dimer interface [polypeptide binding]; other site 1087452002270 N-terminal domain interface [polypeptide binding]; other site 1087452002271 sulfate 1 binding site; other site 1087452002272 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1087452002273 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 1087452002274 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1087452002275 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 1087452002276 DNA binding residues [nucleotide binding] 1087452002277 sec-independent translocase; Provisional; Region: tatB; PRK00182 1087452002278 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1087452002279 Domain of unknown function DUF59; Region: DUF59; pfam01883 1087452002280 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1087452002281 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 1087452002282 Predicted membrane protein [Function unknown]; Region: COG4420 1087452002283 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1087452002284 MgtE intracellular N domain; Region: MgtE_N; smart00924 1087452002285 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 1087452002286 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1087452002287 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 1087452002288 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1087452002289 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1087452002290 TPP-binding site [chemical binding]; other site 1087452002291 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1087452002292 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1087452002293 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1087452002294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452002295 Walker A/P-loop; other site 1087452002296 ATP binding site [chemical binding]; other site 1087452002297 Q-loop/lid; other site 1087452002298 ABC transporter signature motif; other site 1087452002299 Walker B; other site 1087452002300 D-loop; other site 1087452002301 H-loop/switch region; other site 1087452002302 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1087452002303 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1087452002304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452002305 Walker A/P-loop; other site 1087452002306 ATP binding site [chemical binding]; other site 1087452002307 Q-loop/lid; other site 1087452002308 ABC transporter signature motif; other site 1087452002309 Walker B; other site 1087452002310 D-loop; other site 1087452002311 H-loop/switch region; other site 1087452002312 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1087452002313 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1087452002314 shikimate binding site; other site 1087452002315 NAD(P) binding site [chemical binding]; other site 1087452002316 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1087452002317 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1087452002318 substrate binding pocket [chemical binding]; other site 1087452002319 catalytic triad [active] 1087452002320 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1087452002321 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 1087452002322 active site 1087452002323 catalytic residues [active] 1087452002324 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1087452002325 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u2; cd11478 1087452002326 Na binding site [ion binding]; other site 1087452002327 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 1087452002328 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1087452002329 nucleotide binding site/active site [active] 1087452002330 HIT family signature motif; other site 1087452002331 catalytic residue [active] 1087452002332 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1087452002333 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1087452002334 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1087452002335 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1087452002336 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 1087452002337 ATP binding site [chemical binding]; other site 1087452002338 Mg++ binding site [ion binding]; other site 1087452002339 motif III; other site 1087452002340 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 1087452002341 nucleotide binding region [chemical binding]; other site 1087452002342 ATP-binding site [chemical binding]; other site 1087452002343 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1087452002344 putative RNA binding site [nucleotide binding]; other site 1087452002345 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1087452002346 dimer interface [polypeptide binding]; other site 1087452002347 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1087452002348 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1087452002349 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1087452002350 Na binding site [ion binding]; other site 1087452002351 SNF2 Helicase protein; Region: DUF3670; pfam12419 1087452002352 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1087452002353 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 1087452002354 ATP binding site [chemical binding]; other site 1087452002355 putative Mg++ binding site [ion binding]; other site 1087452002356 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 1087452002357 nucleotide binding region [chemical binding]; other site 1087452002358 ATP-binding site [chemical binding]; other site 1087452002359 Uncharacterized conserved protein [Function unknown]; Region: COG4279 1087452002360 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1087452002361 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1087452002362 active site 1087452002363 metal binding site [ion binding]; metal-binding site 1087452002364 DNA binding site [nucleotide binding] 1087452002365 AAA domain; Region: AAA_23; pfam13476 1087452002366 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1087452002367 MarR family; Region: MarR_2; cl17246 1087452002368 PspC domain; Region: PspC; pfam04024 1087452002369 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1087452002370 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1087452002371 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1087452002372 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1087452002373 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1087452002374 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1087452002375 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1087452002376 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1087452002377 Cysteine-rich domain; Region: CCG; pfam02754 1087452002378 Cysteine-rich domain; Region: CCG; pfam02754 1087452002379 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1087452002380 L-lactate permease; Region: Lactate_perm; cl00701 1087452002381 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1087452002382 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1087452002383 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1087452002384 active site 1087452002385 HIGH motif; other site 1087452002386 KMSK motif region; other site 1087452002387 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1087452002388 tRNA binding surface [nucleotide binding]; other site 1087452002389 anticodon binding site; other site 1087452002390 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1087452002391 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1087452002392 active site 1087452002393 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1087452002394 substrate binding site [chemical binding]; other site 1087452002395 catalytic residues [active] 1087452002396 dimer interface [polypeptide binding]; other site 1087452002397 homoserine dehydrogenase; Provisional; Region: PRK06349 1087452002398 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1087452002399 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1087452002400 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 1087452002401 homoserine kinase; Provisional; Region: PRK01212 1087452002402 Predicted transcriptional regulator [Transcription]; Region: COG2345 1087452002403 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 1087452002404 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05620 1087452002405 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1087452002406 acyl-activating enzyme (AAE) consensus motif; other site 1087452002407 AMP binding site [chemical binding]; other site 1087452002408 active site 1087452002409 CoA binding site [chemical binding]; other site 1087452002410 transcription termination factor Rho; Provisional; Region: PRK12678 1087452002411 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1087452002412 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 1087452002413 RNA binding site [nucleotide binding]; other site 1087452002414 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 1087452002415 multimer interface [polypeptide binding]; other site 1087452002416 Walker A motif; other site 1087452002417 ATP binding site [chemical binding]; other site 1087452002418 Walker B motif; other site 1087452002419 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1087452002420 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1087452002421 RF-1 domain; Region: RF-1; pfam00472 1087452002422 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1087452002423 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 1087452002424 S-adenosylmethionine binding site [chemical binding]; other site 1087452002425 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1087452002426 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1087452002427 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 1087452002428 Mg++ binding site [ion binding]; other site 1087452002429 putative catalytic motif [active] 1087452002430 substrate binding site [chemical binding]; other site 1087452002431 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1087452002432 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1087452002433 F0F1 ATP synthase subunit C; Validated; Region: PRK07874 1087452002434 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1087452002435 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 1087452002436 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1087452002437 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1087452002438 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1087452002439 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 1087452002440 beta subunit interaction interface [polypeptide binding]; other site 1087452002441 Walker A motif; other site 1087452002442 ATP binding site [chemical binding]; other site 1087452002443 Walker B motif; other site 1087452002444 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1087452002445 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1087452002446 core domain interface [polypeptide binding]; other site 1087452002447 delta subunit interface [polypeptide binding]; other site 1087452002448 epsilon subunit interface [polypeptide binding]; other site 1087452002449 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1087452002450 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1087452002451 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 1087452002452 alpha subunit interaction interface [polypeptide binding]; other site 1087452002453 Walker A motif; other site 1087452002454 ATP binding site [chemical binding]; other site 1087452002455 Walker B motif; other site 1087452002456 inhibitor binding site; inhibition site 1087452002457 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1087452002458 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1087452002459 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1087452002460 gamma subunit interface [polypeptide binding]; other site 1087452002461 epsilon subunit interface [polypeptide binding]; other site 1087452002462 LBP interface [polypeptide binding]; other site 1087452002463 hypothetical protein; Provisional; Region: PRK03298 1087452002464 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1087452002465 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1087452002466 dimer interface [polypeptide binding]; other site 1087452002467 substrate binding site [chemical binding]; other site 1087452002468 metal binding site [ion binding]; metal-binding site 1087452002469 Domain of unknown function DUF77; Region: DUF77; pfam01910 1087452002470 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1087452002471 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1087452002472 glycogen branching enzyme; Provisional; Region: PRK05402 1087452002473 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1087452002474 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1087452002475 active site 1087452002476 catalytic site [active] 1087452002477 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1087452002478 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1087452002479 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1087452002480 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1087452002481 active site 1087452002482 catalytic site [active] 1087452002483 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1087452002484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452002485 Walker A/P-loop; other site 1087452002486 ATP binding site [chemical binding]; other site 1087452002487 ABC transporter signature motif; other site 1087452002488 Walker B; other site 1087452002489 D-loop; other site 1087452002490 H-loop/switch region; other site 1087452002491 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 1087452002492 Ligand binding site [chemical binding]; other site 1087452002493 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1087452002494 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1087452002495 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 1087452002496 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1087452002497 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1087452002498 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1087452002499 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1087452002500 catalytic residue [active] 1087452002501 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 1087452002502 S-adenosylmethionine binding site [chemical binding]; other site 1087452002503 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 1087452002504 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 1087452002505 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1087452002506 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1087452002507 active site 1087452002508 catalytic site [active] 1087452002509 substrate binding site [chemical binding]; other site 1087452002510 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1087452002511 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 1087452002512 nucleotide binding pocket [chemical binding]; other site 1087452002513 K-X-D-G motif; other site 1087452002514 catalytic site [active] 1087452002515 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1087452002516 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1087452002517 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 1087452002518 Dimer interface [polypeptide binding]; other site 1087452002519 BRCT sequence motif; other site 1087452002520 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1087452002521 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1087452002522 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1087452002523 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1087452002524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1087452002525 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 1087452002526 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1087452002527 putative substrate translocation pore; other site 1087452002528 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 1087452002529 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1087452002530 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 1087452002531 ABC-ATPase subunit interface; other site 1087452002532 dimer interface [polypeptide binding]; other site 1087452002533 putative PBP binding regions; other site 1087452002534 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1087452002535 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452002536 Walker A/P-loop; other site 1087452002537 ATP binding site [chemical binding]; other site 1087452002538 Q-loop/lid; other site 1087452002539 ABC transporter signature motif; other site 1087452002540 Walker B; other site 1087452002541 D-loop; other site 1087452002542 H-loop/switch region; other site 1087452002543 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1087452002544 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1087452002545 putative ligand binding residues [chemical binding]; other site 1087452002546 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1087452002547 phosphofructokinase; Region: PFK_mixed; TIGR02483 1087452002548 active site 1087452002549 ADP/pyrophosphate binding site [chemical binding]; other site 1087452002550 dimerization interface [polypeptide binding]; other site 1087452002551 allosteric effector site; other site 1087452002552 fructose-1,6-bisphosphate binding site; other site 1087452002553 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1087452002554 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1087452002555 GatB domain; Region: GatB_Yqey; smart00845 1087452002556 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1087452002557 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1087452002558 active site 1087452002559 catalytic tetrad [active] 1087452002560 Lysine efflux permease [General function prediction only]; Region: COG1279 1087452002561 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1087452002562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1087452002563 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1087452002564 dimerization interface [polypeptide binding]; other site 1087452002565 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1087452002566 Predicted membrane protein [Function unknown]; Region: COG2259 1087452002567 Dehydratase family; Region: ILVD_EDD; cl00340 1087452002568 Dehydratase family; Region: ILVD_EDD; cl00340 1087452002569 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 1087452002570 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1087452002571 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1087452002572 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1087452002573 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1087452002574 putative valine binding site [chemical binding]; other site 1087452002575 dimer interface [polypeptide binding]; other site 1087452002576 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1087452002577 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1087452002578 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1087452002579 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1087452002580 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1087452002581 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1087452002582 Protein of unknown function DUF262; Region: DUF262; pfam03235 1087452002583 Uncharacterized conserved protein [Function unknown]; Region: COG3472 1087452002584 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1087452002585 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1087452002586 ligand binding site [chemical binding]; other site 1087452002587 NAD binding site [chemical binding]; other site 1087452002588 dimerization interface [polypeptide binding]; other site 1087452002589 catalytic site [active] 1087452002590 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1087452002591 putative L-serine binding site [chemical binding]; other site 1087452002592 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 1087452002593 tartrate dehydrogenase; Region: TTC; TIGR02089 1087452002594 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1087452002595 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 1087452002596 ligand binding site [chemical binding]; other site 1087452002597 flexible hinge region; other site 1087452002598 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1087452002599 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1087452002600 metal binding triad; other site 1087452002601 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1087452002602 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1087452002603 active site 1087452002604 catalytic site [active] 1087452002605 substrate binding site [chemical binding]; other site 1087452002606 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1087452002607 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1087452002608 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1087452002609 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1087452002610 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1087452002611 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452002612 HIGH motif; other site 1087452002613 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1087452002614 active site 1087452002615 KMSKS motif; other site 1087452002616 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1087452002617 Cutinase; Region: Cutinase; pfam01083 1087452002618 biotin synthase; Region: bioB; TIGR00433 1087452002619 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 1087452002620 FeS/SAM binding site; other site 1087452002621 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1087452002622 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1087452002623 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1087452002624 Zn2+ binding site [ion binding]; other site 1087452002625 Mg2+ binding site [ion binding]; other site 1087452002626 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1087452002627 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1087452002628 Bacterial transcriptional regulator; Region: IclR; pfam01614 1087452002629 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1087452002630 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1087452002631 substrate binding site [chemical binding]; other site 1087452002632 ligand binding site [chemical binding]; other site 1087452002633 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1087452002634 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 1087452002635 substrate binding site [chemical binding]; other site 1087452002636 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 1087452002637 active site 1087452002638 Ap6A binding site [chemical binding]; other site 1087452002639 nudix motif; other site 1087452002640 metal binding site [ion binding]; metal-binding site 1087452002641 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 1087452002642 catalytic core [active] 1087452002643 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1087452002644 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1087452002645 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1087452002646 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1087452002647 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1087452002648 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1087452002649 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 1087452002650 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 1087452002651 thiamine monophosphate kinase; Provisional; Region: PRK05731 1087452002652 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1087452002653 ATP binding site [chemical binding]; other site 1087452002654 dimerization interface [polypeptide binding]; other site 1087452002655 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1087452002656 ligand binding site [chemical binding]; other site 1087452002657 active site 1087452002658 UGI interface [polypeptide binding]; other site 1087452002659 catalytic site [active] 1087452002660 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1087452002661 DAK2 domain; Region: Dak2; pfam02734 1087452002662 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1087452002663 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 1087452002664 generic binding surface II; other site 1087452002665 ssDNA binding site; other site 1087452002666 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 1087452002667 ATP binding site [chemical binding]; other site 1087452002668 putative Mg++ binding site [ion binding]; other site 1087452002669 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 1087452002670 nucleotide binding region [chemical binding]; other site 1087452002671 ATP-binding site [chemical binding]; other site 1087452002672 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1087452002673 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 1087452002674 carboxyltransferase (CT) interaction site; other site 1087452002675 biotinylation site [posttranslational modification]; other site 1087452002676 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1087452002677 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 1087452002678 S-adenosylmethionine binding site [chemical binding]; other site 1087452002679 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1087452002680 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1087452002681 active site 1087452002682 (T/H)XGH motif; other site 1087452002683 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1087452002684 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1087452002685 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1087452002686 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1087452002687 Walker A/P-loop; other site 1087452002688 ATP binding site [chemical binding]; other site 1087452002689 Q-loop/lid; other site 1087452002690 ABC transporter signature motif; other site 1087452002691 Walker B; other site 1087452002692 D-loop; other site 1087452002693 H-loop/switch region; other site 1087452002694 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1087452002695 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 1087452002696 dimer interface [polypeptide binding]; other site 1087452002697 conserved gate region; other site 1087452002698 putative PBP binding loops; other site 1087452002699 ABC-ATPase subunit interface; other site 1087452002700 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 1087452002701 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1087452002702 substrate binding pocket [chemical binding]; other site 1087452002703 membrane-bound complex binding site; other site 1087452002704 hinge residues; other site 1087452002705 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1087452002706 DNA polymerase I; Provisional; Region: PRK05755 1087452002707 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1087452002708 active site 1087452002709 metal binding site 1 [ion binding]; metal-binding site 1087452002710 putative 5' ssDNA interaction site; other site 1087452002711 metal binding site 3; metal-binding site 1087452002712 metal binding site 2 [ion binding]; metal-binding site 1087452002713 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1087452002714 putative DNA binding site [nucleotide binding]; other site 1087452002715 putative metal binding site [ion binding]; other site 1087452002716 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 1087452002717 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1087452002718 active site 1087452002719 DNA binding site [nucleotide binding] 1087452002720 catalytic site [active] 1087452002721 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1087452002722 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 1087452002723 S-adenosylmethionine binding site [chemical binding]; other site 1087452002724 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 1087452002725 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 1087452002726 RNA binding site [nucleotide binding]; other site 1087452002727 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 1087452002728 RNA binding site [nucleotide binding]; other site 1087452002729 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 1087452002730 RNA binding site [nucleotide binding]; other site 1087452002731 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 1087452002732 RNA binding site [nucleotide binding]; other site 1087452002733 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1087452002734 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1087452002735 active site turn [active] 1087452002736 phosphorylation site [posttranslational modification] 1087452002737 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1087452002738 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1087452002739 HPr interaction site; other site 1087452002740 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1087452002741 active site 1087452002742 phosphorylation site [posttranslational modification] 1087452002743 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 1087452002744 ATP-binding [chemical binding]; other site 1087452002745 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1087452002746 CoA-binding site [chemical binding]; other site 1087452002747 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 1087452002748 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 1087452002749 FeS/SAM binding site; other site 1087452002750 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1087452002751 excinuclease ABC subunit B; Provisional; Region: PRK05298 1087452002752 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 1087452002753 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 1087452002754 nucleotide binding region [chemical binding]; other site 1087452002755 ATP-binding site [chemical binding]; other site 1087452002756 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1087452002757 UvrB/uvrC motif; Region: UVR; pfam02151 1087452002758 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1087452002759 Ligand Binding Site [chemical binding]; other site 1087452002760 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1087452002761 Part of AAA domain; Region: AAA_19; pfam13245 1087452002762 Family description; Region: UvrD_C_2; pfam13538 1087452002763 Predicted membrane protein [Function unknown]; Region: COG2259 1087452002764 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1087452002765 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1087452002766 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1087452002767 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1087452002768 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1087452002769 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1087452002770 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1087452002771 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1087452002772 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1087452002773 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1087452002774 23S rRNA binding site [nucleotide binding]; other site 1087452002775 L21 binding site [polypeptide binding]; other site 1087452002776 L13 binding site [polypeptide binding]; other site 1087452002777 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1087452002778 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1087452002779 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1087452002780 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1087452002781 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1087452002782 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 1087452002783 dimer interface [polypeptide binding]; other site 1087452002784 motif 1; other site 1087452002785 active site 1087452002786 motif 2; other site 1087452002787 motif 3; other site 1087452002788 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1087452002789 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 1087452002790 putative tRNA-binding site [nucleotide binding]; other site 1087452002791 B3/4 domain; Region: B3_4; pfam03483 1087452002792 tRNA synthetase B5 domain; Region: B5; smart00874 1087452002793 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 1087452002794 dimer interface [polypeptide binding]; other site 1087452002795 motif 1; other site 1087452002796 motif 3; other site 1087452002797 motif 2; other site 1087452002798 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1087452002799 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1087452002800 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1087452002801 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1087452002802 active site pocket [active] 1087452002803 cleavage site 1087452002804 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1087452002805 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 1087452002806 feedback inhibition sensing region; other site 1087452002807 homohexameric interface [polypeptide binding]; other site 1087452002808 nucleotide binding site [chemical binding]; other site 1087452002809 N-acetyl-L-glutamate binding site [chemical binding]; other site 1087452002810 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 1087452002811 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 1087452002812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452002813 catalytic residue [active] 1087452002814 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1087452002815 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1087452002816 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1087452002817 arginine repressor; Provisional; Region: PRK03341 1087452002818 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1087452002819 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1087452002820 argininosuccinate synthase; Provisional; Region: PRK13820 1087452002821 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 1087452002822 ANP binding site [chemical binding]; other site 1087452002823 Substrate Binding Site II [chemical binding]; other site 1087452002824 Substrate Binding Site I [chemical binding]; other site 1087452002825 argininosuccinate lyase; Provisional; Region: PRK00855 1087452002826 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1087452002827 active sites [active] 1087452002828 tetramer interface [polypeptide binding]; other site 1087452002829 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1087452002830 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1087452002831 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1087452002832 active site 1087452002833 HIGH motif; other site 1087452002834 dimer interface [polypeptide binding]; other site 1087452002835 KMSKS motif; other site 1087452002836 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 1087452002837 RNA binding surface [nucleotide binding]; other site 1087452002838 transcription termination factor Rho; Provisional; Region: PRK12678 1087452002839 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1087452002840 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 1087452002841 active site 1087452002842 motif I; other site 1087452002843 motif II; other site 1087452002844 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 1087452002845 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1087452002846 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 1087452002847 RNA binding surface [nucleotide binding]; other site 1087452002848 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 1087452002849 S-adenosylmethionine binding site [chemical binding]; other site 1087452002850 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 1087452002851 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1087452002852 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1087452002853 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1087452002854 Walker A/P-loop; other site 1087452002855 ATP binding site [chemical binding]; other site 1087452002856 Q-loop/lid; other site 1087452002857 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1087452002858 ABC transporter signature motif; other site 1087452002859 Walker B; other site 1087452002860 D-loop; other site 1087452002861 H-loop/switch region; other site 1087452002862 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 1087452002863 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 1087452002864 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 1087452002865 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 1087452002866 dimer interface [polypeptide binding]; other site 1087452002867 ADP-ribose binding site [chemical binding]; other site 1087452002868 active site 1087452002869 nudix motif; other site 1087452002870 metal binding site [ion binding]; metal-binding site 1087452002871 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1087452002872 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1087452002873 active site 1087452002874 Int/Topo IB signature motif; other site 1087452002875 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1087452002876 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 1087452002877 P-loop; other site 1087452002878 Magnesium ion binding site [ion binding]; other site 1087452002879 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1087452002880 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1087452002881 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1087452002882 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 1087452002883 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 1087452002884 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05630 1087452002885 inhibitor-cofactor binding pocket; inhibition site 1087452002886 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452002887 catalytic residue [active] 1087452002888 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1087452002889 AAA domain; Region: AAA_26; pfam13500 1087452002890 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1087452002891 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1087452002892 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 1087452002893 RNA binding surface [nucleotide binding]; other site 1087452002894 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1087452002895 active site 1087452002896 cytidylate kinase; Provisional; Region: cmk; PRK00023 1087452002897 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 1087452002898 CMP-binding site; other site 1087452002899 The sites determining sugar specificity; other site 1087452002900 GTP-binding protein Der; Reviewed; Region: PRK03003 1087452002901 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1087452002902 G1 box; other site 1087452002903 GTP/Mg2+ binding site [chemical binding]; other site 1087452002904 Switch I region; other site 1087452002905 G2 box; other site 1087452002906 Switch II region; other site 1087452002907 G3 box; other site 1087452002908 G4 box; other site 1087452002909 G5 box; other site 1087452002910 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1087452002911 G1 box; other site 1087452002912 GTP/Mg2+ binding site [chemical binding]; other site 1087452002913 Switch I region; other site 1087452002914 G2 box; other site 1087452002915 G3 box; other site 1087452002916 Switch II region; other site 1087452002917 G4 box; other site 1087452002918 G5 box; other site 1087452002919 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1087452002920 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1087452002921 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 1087452002922 S-adenosylmethionine binding site [chemical binding]; other site 1087452002923 Predicted esterase [General function prediction only]; Region: COG0627 1087452002924 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1087452002925 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 1087452002926 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452002927 intersubunit interface [polypeptide binding]; other site 1087452002928 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1087452002929 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 1087452002930 dimer interface [polypeptide binding]; other site 1087452002931 ABC-ATPase subunit interface; other site 1087452002932 putative PBP binding regions; other site 1087452002933 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1087452002934 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 1087452002935 ABC-ATPase subunit interface; other site 1087452002936 dimer interface [polypeptide binding]; other site 1087452002937 putative PBP binding regions; other site 1087452002938 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1087452002939 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452002940 Walker A/P-loop; other site 1087452002941 ATP binding site [chemical binding]; other site 1087452002942 Q-loop/lid; other site 1087452002943 ABC transporter signature motif; other site 1087452002944 Walker B; other site 1087452002945 D-loop; other site 1087452002946 H-loop/switch region; other site 1087452002947 IucA / IucC family; Region: IucA_IucC; pfam04183 1087452002948 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1087452002949 IucA / IucC family; Region: IucA_IucC; pfam04183 1087452002950 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1087452002951 H+ Antiporter protein; Region: 2A0121; TIGR00900 1087452002952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 1087452002953 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1087452002954 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1087452002955 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 1087452002956 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 1087452002957 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1087452002958 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 1087452002959 nucleotide binding region [chemical binding]; other site 1087452002960 ATP-binding site [chemical binding]; other site 1087452002961 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1087452002962 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1087452002963 phosphopeptide binding site; other site 1087452002964 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1087452002965 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1087452002966 DNA binding residues [nucleotide binding] 1087452002967 Bifunctional nuclease; Region: DNase-RNase; pfam02577 1087452002968 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1087452002969 DNA binding residues [nucleotide binding] 1087452002970 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1087452002971 putative dimer interface [polypeptide binding]; other site 1087452002972 Domain of unknown function DUF21; Region: DUF21; pfam01595 1087452002973 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1087452002974 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 1087452002975 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1087452002976 Domain of unknown function DUF21; Region: DUF21; pfam01595 1087452002977 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 1087452002978 Transporter associated domain; Region: CorC_HlyC; smart01091 1087452002979 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1087452002980 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 1087452002981 ATP binding site [chemical binding]; other site 1087452002982 putative Mg++ binding site [ion binding]; other site 1087452002983 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 1087452002984 nucleotide binding region [chemical binding]; other site 1087452002985 ATP-binding site [chemical binding]; other site 1087452002986 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1087452002987 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1087452002988 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1087452002989 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 1087452002990 CoenzymeA binding site [chemical binding]; other site 1087452002991 subunit interaction site [polypeptide binding]; other site 1087452002992 PHB binding site; other site 1087452002993 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1087452002994 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1087452002995 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1087452002996 oligomer interface [polypeptide binding]; other site 1087452002997 metal binding site [ion binding]; metal-binding site 1087452002998 metal binding site [ion binding]; metal-binding site 1087452002999 putative Cl binding site [ion binding]; other site 1087452003000 basic sphincter; other site 1087452003001 hydrophobic gate; other site 1087452003002 periplasmic entrance; other site 1087452003003 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 1087452003004 S-adenosylmethionine binding site [chemical binding]; other site 1087452003005 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1087452003006 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1087452003007 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1087452003008 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1087452003009 metabolite-proton symporter; Region: 2A0106; TIGR00883 1087452003010 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 1087452003011 putative substrate translocation pore; other site 1087452003012 YceI-like domain; Region: YceI; pfam04264 1087452003013 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 1087452003014 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1087452003015 Ligand binding site; other site 1087452003016 Putative Catalytic site; other site 1087452003017 DXD motif; other site 1087452003018 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1087452003019 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1087452003020 putative active site [active] 1087452003021 catalytic triad [active] 1087452003022 putative dimer interface [polypeptide binding]; other site 1087452003023 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1087452003024 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1087452003025 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1087452003026 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1087452003027 precorrin-3B synthase; Region: CobG; TIGR02435 1087452003028 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1087452003029 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1087452003030 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1087452003031 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1087452003032 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1087452003033 active site 1087452003034 SAM binding site [chemical binding]; other site 1087452003035 homodimer interface [polypeptide binding]; other site 1087452003036 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1087452003037 active site 1087452003038 SAM binding site [chemical binding]; other site 1087452003039 homodimer interface [polypeptide binding]; other site 1087452003040 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1087452003041 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1087452003042 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1087452003043 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 1087452003044 active site 1087452003045 SAM binding site [chemical binding]; other site 1087452003046 homodimer interface [polypeptide binding]; other site 1087452003047 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1087452003048 active site 1087452003049 putative homodimer interface [polypeptide binding]; other site 1087452003050 SAM binding site [chemical binding]; other site 1087452003051 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1087452003052 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 1087452003053 S-adenosylmethionine binding site [chemical binding]; other site 1087452003054 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1087452003055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1087452003056 NAD(P) binding site [chemical binding]; other site 1087452003057 active site 1087452003058 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1087452003059 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1087452003060 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 1087452003061 active site 1087452003062 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 1087452003063 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 1087452003064 ATP binding site [chemical binding]; other site 1087452003065 putative Mg++ binding site [ion binding]; other site 1087452003066 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1087452003067 nucleotide binding region [chemical binding]; other site 1087452003068 ATP-binding site [chemical binding]; other site 1087452003069 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 1087452003070 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1087452003071 twin arginine translocase protein A; Provisional; Region: tatA; PRK00191 1087452003072 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 1087452003073 Predicted transcriptional regulator [Transcription]; Region: COG2378 1087452003074 WYL domain; Region: WYL; pfam13280 1087452003075 Predicted transcriptional regulator [Transcription]; Region: COG2378 1087452003076 WYL domain; Region: WYL; pfam13280 1087452003077 Pup-ligase protein; Region: Pup_ligase; cl15463 1087452003078 Pup-like protein; Region: Pup; pfam05639 1087452003079 Pup-ligase protein; Region: Pup_ligase; cl15463 1087452003080 proteasome ATPase; Region: pup_AAA; TIGR03689 1087452003081 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 1087452003082 Walker A motif; other site 1087452003083 ATP binding site [chemical binding]; other site 1087452003084 Walker B motif; other site 1087452003085 arginine finger; other site 1087452003086 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 1087452003087 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 1087452003088 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1087452003089 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1087452003090 active site 1087452003091 metal binding site [ion binding]; metal-binding site 1087452003092 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1087452003093 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1087452003094 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1087452003095 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 1087452003096 Potassium binding sites [ion binding]; other site 1087452003097 Cesium cation binding sites [ion binding]; other site 1087452003098 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1087452003099 Aspartase; Region: Aspartase; cd01357 1087452003100 active sites [active] 1087452003101 tetramer interface [polypeptide binding]; other site 1087452003102 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1087452003103 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1087452003104 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1087452003105 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1087452003106 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1087452003107 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 1087452003108 homodimer interface [polypeptide binding]; other site 1087452003109 putative metal binding site [ion binding]; other site 1087452003110 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1087452003111 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 1087452003112 motif II; other site 1087452003113 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1087452003114 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1087452003115 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1087452003116 substrate binding pocket [chemical binding]; other site 1087452003117 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1087452003118 B12 binding site [chemical binding]; other site 1087452003119 cobalt ligand [ion binding]; other site 1087452003120 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1087452003121 cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase; Region: mycothiol_MshC; TIGR03447 1087452003122 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452003123 active site 1087452003124 HIGH motif; other site 1087452003125 nucleotide binding site [chemical binding]; other site 1087452003126 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452003127 active site 1087452003128 KMSKS motif; other site 1087452003129 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1087452003130 tRNA binding surface [nucleotide binding]; other site 1087452003131 anticodon binding site; other site 1087452003132 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 1087452003133 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1087452003134 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1087452003135 active site 1087452003136 catalytic tetrad [active] 1087452003137 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1087452003138 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1087452003139 quinone interaction residues [chemical binding]; other site 1087452003140 active site 1087452003141 catalytic residues [active] 1087452003142 FMN binding site [chemical binding]; other site 1087452003143 substrate binding site [chemical binding]; other site 1087452003144 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1087452003145 substrate binding site [chemical binding]; other site 1087452003146 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1087452003147 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1087452003148 dimerization domain swap beta strand [polypeptide binding]; other site 1087452003149 regulatory protein interface [polypeptide binding]; other site 1087452003150 active site 1087452003151 regulatory phosphorylation site [posttranslational modification]; other site 1087452003152 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 1087452003153 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1087452003154 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1087452003155 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1087452003156 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1087452003157 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1087452003158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1087452003159 NAD(P) binding site [chemical binding]; other site 1087452003160 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1087452003161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1087452003162 NAD(P) binding site [chemical binding]; other site 1087452003163 active site 1087452003164 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1087452003165 GTP/Mg2+ binding site [chemical binding]; other site 1087452003166 G4 box; other site 1087452003167 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1087452003168 G5 box; other site 1087452003169 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1087452003170 Walker A; other site 1087452003171 G1 box; other site 1087452003172 Switch I region; other site 1087452003173 G2 box; other site 1087452003174 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1087452003175 G4 box; other site 1087452003176 G5 box; other site 1087452003177 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1087452003178 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 1087452003179 active site 1087452003180 substrate binding site [chemical binding]; other site 1087452003181 coenzyme B12 binding site [chemical binding]; other site 1087452003182 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1087452003183 B12 binding site [chemical binding]; other site 1087452003184 cobalt ligand [ion binding]; other site 1087452003185 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 1087452003186 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 1087452003187 heterodimer interface [polypeptide binding]; other site 1087452003188 substrate interaction site [chemical binding]; other site 1087452003189 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 1087452003190 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1087452003191 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1087452003192 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1087452003193 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1087452003194 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1087452003195 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 1087452003196 ferrochelatase; Reviewed; Region: hemH; PRK00035 1087452003197 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1087452003198 C-terminal domain interface [polypeptide binding]; other site 1087452003199 active site 1087452003200 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1087452003201 active site 1087452003202 N-terminal domain interface [polypeptide binding]; other site 1087452003203 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1087452003204 NlpC/P60 family; Region: NLPC_P60; pfam00877 1087452003205 aconitate hydratase; Validated; Region: PRK09277 1087452003206 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1087452003207 substrate binding site [chemical binding]; other site 1087452003208 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1087452003209 ligand binding site [chemical binding]; other site 1087452003210 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1087452003211 substrate binding site [chemical binding]; other site 1087452003212 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1087452003213 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452003214 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1087452003215 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cd03128 1087452003216 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1087452003217 catalytic triad [active] 1087452003218 conserved cys residue [active] 1087452003219 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1087452003220 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1087452003221 AAA ATPase domain; Region: AAA_16; pfam13191 1087452003222 AAA domain; Region: AAA_22; pfam13401 1087452003223 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1087452003224 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1087452003225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452003226 Walker A/P-loop; other site 1087452003227 ATP binding site [chemical binding]; other site 1087452003228 Q-loop/lid; other site 1087452003229 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1087452003230 ABC transporter signature motif; other site 1087452003231 Walker B; other site 1087452003232 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1087452003233 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1087452003234 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1087452003235 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1087452003236 trimerization site [polypeptide binding]; other site 1087452003237 active site 1087452003238 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1087452003239 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 1087452003240 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1087452003241 catalytic residue [active] 1087452003242 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1087452003243 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1087452003244 Walker A/P-loop; other site 1087452003245 ATP binding site [chemical binding]; other site 1087452003246 Q-loop/lid; other site 1087452003247 ABC transporter signature motif; other site 1087452003248 Walker B; other site 1087452003249 D-loop; other site 1087452003250 H-loop/switch region; other site 1087452003251 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1087452003252 FeS assembly protein SufD; Region: sufD; TIGR01981 1087452003253 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1087452003254 FeS assembly protein SufB; Region: sufB; TIGR01980 1087452003255 Predicted transcriptional regulator [Transcription]; Region: COG2345 1087452003256 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 1087452003257 putative DNA binding site [nucleotide binding]; other site 1087452003258 putative Zn2+ binding site [ion binding]; other site 1087452003259 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 1087452003260 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1087452003261 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1087452003262 Walker A/P-loop; other site 1087452003263 ATP binding site [chemical binding]; other site 1087452003264 Q-loop/lid; other site 1087452003265 ABC transporter signature motif; other site 1087452003266 Walker B; other site 1087452003267 D-loop; other site 1087452003268 H-loop/switch region; other site 1087452003269 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1087452003270 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1087452003271 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1087452003272 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1087452003273 UbiA prenyltransferase family; Region: UbiA; pfam01040 1087452003274 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1087452003275 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 1087452003276 TPP-binding site [chemical binding]; other site 1087452003277 dimer interface [polypeptide binding]; other site 1087452003278 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 1087452003279 PYR/PP interface [polypeptide binding]; other site 1087452003280 dimer interface [polypeptide binding]; other site 1087452003281 TPP binding site [chemical binding]; other site 1087452003282 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1087452003283 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1087452003284 putative active site [active] 1087452003285 transaldolase; Provisional; Region: PRK03903 1087452003286 catalytic residue [active] 1087452003287 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1087452003288 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1087452003289 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1087452003290 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 1087452003291 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 1087452003292 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1087452003293 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1087452003294 putative active site [active] 1087452003295 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1087452003296 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1087452003297 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1087452003298 triosephosphate isomerase; Provisional; Region: PRK14567 1087452003299 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 1087452003300 substrate binding site [chemical binding]; other site 1087452003301 dimer interface [polypeptide binding]; other site 1087452003302 catalytic triad [active] 1087452003303 Phosphoglycerate kinase; Region: PGK; pfam00162 1087452003304 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 1087452003305 substrate binding site [chemical binding]; other site 1087452003306 hinge regions; other site 1087452003307 ADP binding site [chemical binding]; other site 1087452003308 catalytic site [active] 1087452003309 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1087452003310 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1087452003311 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1087452003312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1087452003313 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1087452003314 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1087452003315 dimer interface [polypeptide binding]; other site 1087452003316 phosphate binding site [ion binding]; other site 1087452003317 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1087452003318 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1087452003319 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1087452003320 GIY-YIG motif/motif A; other site 1087452003321 active site 1087452003322 catalytic site [active] 1087452003323 putative DNA binding site [nucleotide binding]; other site 1087452003324 metal binding site [ion binding]; metal-binding site 1087452003325 UvrB/uvrC motif; Region: UVR; pfam02151 1087452003326 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1087452003327 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 1087452003328 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 1087452003329 homopentamer interface [polypeptide binding]; other site 1087452003330 active site 1087452003331 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1087452003332 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1087452003333 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 1087452003334 dimerization interface [polypeptide binding]; other site 1087452003335 active site 1087452003336 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1087452003337 Lumazine binding domain; Region: Lum_binding; pfam00677 1087452003338 Lumazine binding domain; Region: Lum_binding; pfam00677 1087452003339 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1087452003340 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 1087452003341 catalytic motif [active] 1087452003342 Zn binding site [ion binding]; other site 1087452003343 RibD C-terminal domain; Region: RibD_C; pfam01872 1087452003344 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1087452003345 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 1087452003346 substrate binding site [chemical binding]; other site 1087452003347 hexamer interface [polypeptide binding]; other site 1087452003348 metal binding site [ion binding]; metal-binding site 1087452003349 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1087452003350 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1087452003351 putative RNA binding site [nucleotide binding]; other site 1087452003352 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 1087452003353 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1087452003354 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1087452003355 putative active site [active] 1087452003356 substrate binding site [chemical binding]; other site 1087452003357 putative cosubstrate binding site; other site 1087452003358 catalytic site [active] 1087452003359 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1087452003360 substrate binding site [chemical binding]; other site 1087452003361 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 1087452003362 active site 1087452003363 catalytic residues [active] 1087452003364 metal binding site [ion binding]; metal-binding site 1087452003365 primosome assembly protein PriA; Provisional; Region: PRK14873 1087452003366 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1087452003367 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1087452003368 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1087452003369 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1087452003370 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1087452003371 Flavoprotein; Region: Flavoprotein; pfam02441 1087452003372 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1087452003373 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 1087452003374 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1087452003375 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 1087452003376 catalytic site [active] 1087452003377 G-X2-G-X-G-K; other site 1087452003378 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 1087452003379 active site 1087452003380 dimer interface [polypeptide binding]; other site 1087452003381 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1087452003382 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1087452003383 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1087452003384 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1087452003385 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1087452003386 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1087452003387 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 1087452003388 IMP binding site; other site 1087452003389 dimer interface [polypeptide binding]; other site 1087452003390 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1087452003391 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1087452003392 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1087452003393 catalytic site [active] 1087452003394 subunit interface [polypeptide binding]; other site 1087452003395 dihydroorotase; Validated; Region: pyrC; PRK09357 1087452003396 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 1087452003397 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 1087452003398 active site 1087452003399 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1087452003400 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1087452003401 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1087452003402 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1087452003403 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452003404 active site 1087452003405 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 1087452003406 putative hydrophobic ligand binding site [chemical binding]; other site 1087452003407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1087452003408 TIGR01777 family protein; Region: yfcH 1087452003409 NAD(P) binding site [chemical binding]; other site 1087452003410 active site 1087452003411 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1087452003412 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1087452003413 putative RNA binding site [nucleotide binding]; other site 1087452003414 elongation factor P; Validated; Region: PRK00529 1087452003415 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1087452003416 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 1087452003417 RNA binding site [nucleotide binding]; other site 1087452003418 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 1087452003419 RNA binding site [nucleotide binding]; other site 1087452003420 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1087452003421 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1087452003422 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 1087452003423 active site 1087452003424 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1087452003425 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 1087452003426 trimer interface [polypeptide binding]; other site 1087452003427 active site 1087452003428 dimer interface [polypeptide binding]; other site 1087452003429 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1087452003430 active site 1087452003431 dimer interface [polypeptide binding]; other site 1087452003432 metal binding site [ion binding]; metal-binding site 1087452003433 shikimate kinase; Reviewed; Region: aroK; PRK00131 1087452003434 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 1087452003435 ADP binding site [chemical binding]; other site 1087452003436 magnesium binding site [ion binding]; other site 1087452003437 putative shikimate binding site; other site 1087452003438 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1087452003439 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1087452003440 Tetramer interface [polypeptide binding]; other site 1087452003441 active site 1087452003442 FMN-binding site [chemical binding]; other site 1087452003443 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1087452003444 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1087452003445 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1087452003446 shikimate binding site; other site 1087452003447 NAD(P) binding site [chemical binding]; other site 1087452003448 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1087452003449 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1087452003450 dimerization interface [polypeptide binding]; other site 1087452003451 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1087452003452 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1087452003453 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 1087452003454 motif 1; other site 1087452003455 active site 1087452003456 motif 2; other site 1087452003457 motif 3; other site 1087452003458 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1087452003459 DHHA1 domain; Region: DHHA1; pfam02272 1087452003460 recombination factor protein RarA; Reviewed; Region: PRK13342 1087452003461 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 1087452003462 Walker A motif; other site 1087452003463 ATP binding site [chemical binding]; other site 1087452003464 Walker B motif; other site 1087452003465 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1087452003466 Phosphotransferase enzyme family; Region: APH; pfam01636 1087452003467 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1087452003468 substrate binding site [chemical binding]; other site 1087452003469 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1087452003470 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 1087452003471 dimer interface [polypeptide binding]; other site 1087452003472 anticodon binding site; other site 1087452003473 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 1087452003474 homodimer interface [polypeptide binding]; other site 1087452003475 motif 1; other site 1087452003476 active site 1087452003477 motif 2; other site 1087452003478 GAD domain; Region: GAD; pfam02938 1087452003479 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 1087452003480 active site 1087452003481 motif 3; other site 1087452003482 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1087452003483 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1087452003484 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 1087452003485 ATP binding site [chemical binding]; other site 1087452003486 putative Mg++ binding site [ion binding]; other site 1087452003487 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 1087452003488 nucleotide binding region [chemical binding]; other site 1087452003489 ATP-binding site [chemical binding]; other site 1087452003490 Predicted membrane protein [Function unknown]; Region: COG1511 1087452003491 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1087452003492 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1087452003493 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1087452003494 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1087452003495 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 1087452003496 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1087452003497 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452003498 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1087452003499 LLM-partnered FMN reductase, CE1759 family; Region: LLM_duo_CE1759; TIGR04037 1087452003500 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1087452003501 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1087452003502 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1087452003503 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1087452003504 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 1087452003505 putative active site [active] 1087452003506 putative catalytic site [active] 1087452003507 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1087452003508 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1087452003509 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1087452003510 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 1087452003511 dimer interface [polypeptide binding]; other site 1087452003512 motif 1; other site 1087452003513 active site 1087452003514 motif 2; other site 1087452003515 motif 3; other site 1087452003516 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 1087452003517 anticodon binding site; other site 1087452003518 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1087452003519 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1087452003520 dimer interface [polypeptide binding]; other site 1087452003521 catalytic triad [active] 1087452003522 peroxidatic and resolving cysteines [active] 1087452003523 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1087452003524 active site 1087452003525 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1087452003526 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1087452003527 Zn2+ binding site [ion binding]; other site 1087452003528 Mg2+ binding site [ion binding]; other site 1087452003529 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1087452003530 synthetase active site [active] 1087452003531 NTP binding site [chemical binding]; other site 1087452003532 metal binding site [ion binding]; metal-binding site 1087452003533 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 1087452003534 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1087452003535 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452003536 active site 1087452003537 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1087452003538 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 1087452003539 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1087452003540 Protein export membrane protein; Region: SecD_SecF; pfam02355 1087452003541 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 1087452003542 Protein export membrane protein; Region: SecD_SecF; cl14618 1087452003543 Preprotein translocase subunit; Region: YajC; pfam02699 1087452003544 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1087452003545 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 1087452003546 Walker A motif; other site 1087452003547 ATP binding site [chemical binding]; other site 1087452003548 Walker B motif; other site 1087452003549 arginine finger; other site 1087452003550 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1087452003551 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1087452003552 RuvA N terminal domain; Region: RuvA_N; pfam01330 1087452003553 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1087452003554 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1087452003555 active site 1087452003556 putative DNA-binding cleft [nucleotide binding]; other site 1087452003557 dimer interface [polypeptide binding]; other site 1087452003558 hypothetical protein; Validated; Region: PRK00110 1087452003559 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1087452003560 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1087452003561 active site 1087452003562 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1087452003563 catalytic triad [active] 1087452003564 dimer interface [polypeptide binding]; other site 1087452003565 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1087452003566 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 1087452003567 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1087452003568 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1087452003569 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1087452003570 catalytic residue [active] 1087452003571 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1087452003572 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 1087452003573 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1087452003574 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1087452003575 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1087452003576 putative acyl-acceptor binding pocket; other site 1087452003577 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1087452003578 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 1087452003579 nucleotide binding site/active site [active] 1087452003580 HIT family signature motif; other site 1087452003581 catalytic residue [active] 1087452003582 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1087452003583 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1087452003584 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 1087452003585 active site 1087452003586 dimer interface [polypeptide binding]; other site 1087452003587 motif 1; other site 1087452003588 motif 2; other site 1087452003589 motif 3; other site 1087452003590 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 1087452003591 anticodon binding site; other site 1087452003592 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1087452003593 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1087452003594 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1087452003595 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 1087452003596 hypothetical protein; Provisional; Region: PRK14059 1087452003597 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1087452003598 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1087452003599 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1087452003600 SelR domain; Region: SelR; pfam01641 1087452003601 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 1087452003602 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 1087452003603 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1087452003604 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1087452003605 catalytic site [active] 1087452003606 putative active site [active] 1087452003607 putative substrate binding site [chemical binding]; other site 1087452003608 HRDC domain; Region: HRDC; pfam00570 1087452003609 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1087452003610 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 1087452003611 TPP-binding site; other site 1087452003612 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 1087452003613 PYR/PP interface [polypeptide binding]; other site 1087452003614 dimer interface [polypeptide binding]; other site 1087452003615 TPP binding site [chemical binding]; other site 1087452003616 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1087452003617 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 1087452003618 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1087452003619 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 1087452003620 S-adenosylmethionine binding site [chemical binding]; other site 1087452003621 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 1087452003622 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 1087452003623 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1087452003624 trimer interface [polypeptide binding]; other site 1087452003625 active site 1087452003626 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 1087452003627 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 1087452003628 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1087452003629 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1087452003630 nucleotide binding site [chemical binding]; other site 1087452003631 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 1087452003632 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1087452003633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1087452003634 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1087452003635 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 1087452003636 DNA binding residues [nucleotide binding] 1087452003637 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1087452003638 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 1087452003639 ATP binding site [chemical binding]; other site 1087452003640 putative Mg++ binding site [ion binding]; other site 1087452003641 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 1087452003642 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 1087452003643 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1087452003644 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 1087452003645 S-adenosylmethionine binding site [chemical binding]; other site 1087452003646 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 1087452003647 putative active site [active] 1087452003648 dimerization interface [polypeptide binding]; other site 1087452003649 putative tRNAtyr binding site [nucleotide binding]; other site 1087452003650 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 1087452003651 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1087452003652 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1087452003653 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1087452003654 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 1087452003655 DNA binding residues [nucleotide binding] 1087452003656 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1087452003657 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1087452003658 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1087452003659 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 1087452003660 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1087452003661 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1087452003662 NAD binding site [chemical binding]; other site 1087452003663 homodimer interface [polypeptide binding]; other site 1087452003664 active site 1087452003665 substrate binding site [chemical binding]; other site 1087452003666 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 1087452003667 PAC2 family; Region: PAC2; pfam09754 1087452003668 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1087452003669 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1087452003670 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1087452003671 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1087452003672 dimer interface [polypeptide binding]; other site 1087452003673 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1087452003674 catalytic triad [active] 1087452003675 peroxidatic and resolving cysteines [active] 1087452003676 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1087452003677 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1087452003678 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1087452003679 dimerization interface [polypeptide binding]; other site 1087452003680 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 1087452003681 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1087452003682 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 1087452003683 ATP binding site [chemical binding]; other site 1087452003684 putative Mg++ binding site [ion binding]; other site 1087452003685 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 1087452003686 nucleotide binding region [chemical binding]; other site 1087452003687 ATP-binding site [chemical binding]; other site 1087452003688 Helicase associated domain (HA2); Region: HA2; pfam04408 1087452003689 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1087452003690 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1087452003691 ATP cone domain; Region: ATP-cone; pfam03477 1087452003692 LexA repressor; Validated; Region: PRK00215 1087452003693 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1087452003694 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 1087452003695 Catalytic site [active] 1087452003696 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1087452003697 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1087452003698 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1087452003699 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1087452003700 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1087452003701 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1087452003702 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1087452003703 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1087452003704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1087452003705 DNA-binding site [nucleotide binding]; DNA binding site 1087452003706 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1087452003707 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1087452003708 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1087452003709 putative substrate binding site [chemical binding]; other site 1087452003710 putative ATP binding site [chemical binding]; other site 1087452003711 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1087452003712 active site 1087452003713 phosphorylation site [posttranslational modification] 1087452003714 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1087452003715 active site 1087452003716 P-loop; other site 1087452003717 phosphorylation site [posttranslational modification] 1087452003718 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1087452003719 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1087452003720 dimerization domain swap beta strand [polypeptide binding]; other site 1087452003721 regulatory protein interface [polypeptide binding]; other site 1087452003722 active site 1087452003723 regulatory phosphorylation site [posttranslational modification]; other site 1087452003724 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 1087452003725 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1087452003726 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1087452003727 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1087452003728 LLM-partnered FMN reductase, CE1759 family; Region: LLM_duo_CE1759; TIGR04037 1087452003729 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1087452003730 GTPases [General function prediction only]; Region: HflX; COG2262 1087452003731 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1087452003732 HflX GTPase family; Region: HflX; cd01878 1087452003733 G1 box; other site 1087452003734 GTP/Mg2+ binding site [chemical binding]; other site 1087452003735 Switch I region; other site 1087452003736 G2 box; other site 1087452003737 G3 box; other site 1087452003738 Switch II region; other site 1087452003739 G4 box; other site 1087452003740 G5 box; other site 1087452003741 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1087452003742 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1087452003743 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1087452003744 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1087452003745 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1087452003746 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1087452003747 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1087452003748 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1087452003749 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 1087452003750 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1087452003751 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 1087452003752 FeS/SAM binding site; other site 1087452003753 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1087452003754 recombinase A; Provisional; Region: recA; PRK09354 1087452003755 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 1087452003756 hexamer interface [polypeptide binding]; other site 1087452003757 Walker A motif; other site 1087452003758 ATP binding site [chemical binding]; other site 1087452003759 Walker B motif; other site 1087452003760 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 1087452003761 BioY family; Region: BioY; pfam02632 1087452003762 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1087452003763 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1087452003764 Walker A/P-loop; other site 1087452003765 ATP binding site [chemical binding]; other site 1087452003766 Q-loop/lid; other site 1087452003767 ABC transporter signature motif; other site 1087452003768 Walker B; other site 1087452003769 D-loop; other site 1087452003770 H-loop/switch region; other site 1087452003771 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1087452003772 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1087452003773 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 1087452003774 sequence-specific DNA binding site [nucleotide binding]; other site 1087452003775 salt bridge; other site 1087452003776 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1087452003777 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1087452003778 YCII-related domain; Region: YCII; cl00999 1087452003779 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1087452003780 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1087452003781 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1087452003782 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1087452003783 TIGR03085 family protein; Region: TIGR03085 1087452003784 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1087452003785 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1087452003786 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1087452003787 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1087452003788 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1087452003789 dimer interface [polypeptide binding]; other site 1087452003790 active site 1087452003791 catalytic residue [active] 1087452003792 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1087452003793 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1087452003794 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1087452003795 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1087452003796 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 1087452003797 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1087452003798 oligomer interface [polypeptide binding]; other site 1087452003799 RNA binding site [nucleotide binding]; other site 1087452003800 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1087452003801 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1087452003802 RNase E interface [polypeptide binding]; other site 1087452003803 trimer interface [polypeptide binding]; other site 1087452003804 active site 1087452003805 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 1087452003806 putative nucleic acid binding region [nucleotide binding]; other site 1087452003807 G-X-X-G motif; other site 1087452003808 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 1087452003809 RNA binding site [nucleotide binding]; other site 1087452003810 domain interface; other site 1087452003811 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 1087452003812 16S/18S rRNA binding site [nucleotide binding]; other site 1087452003813 S13e-L30e interaction site [polypeptide binding]; other site 1087452003814 25S rRNA binding site [nucleotide binding]; other site 1087452003815 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1087452003816 active site 1087452003817 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1087452003818 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1087452003819 active site 1087452003820 Riboflavin kinase; Region: Flavokinase; smart00904 1087452003821 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 1087452003822 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1087452003823 RNA binding site [nucleotide binding]; other site 1087452003824 active site 1087452003825 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 1087452003826 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1087452003827 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1087452003828 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1087452003829 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1087452003830 active site 1087452003831 metal binding site [ion binding]; metal-binding site 1087452003832 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1087452003833 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1087452003834 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1087452003835 DHH family; Region: DHH; pfam01368 1087452003836 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1087452003837 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1087452003838 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1087452003839 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1087452003840 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1087452003841 G1 box; other site 1087452003842 putative GEF interaction site [polypeptide binding]; other site 1087452003843 GTP/Mg2+ binding site [chemical binding]; other site 1087452003844 Switch I region; other site 1087452003845 G2 box; other site 1087452003846 G3 box; other site 1087452003847 Switch II region; other site 1087452003848 G4 box; other site 1087452003849 G5 box; other site 1087452003850 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 1087452003851 Translation-initiation factor 2; Region: IF-2; pfam11987 1087452003852 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 1087452003853 Protein of unknown function (DUF448); Region: DUF448; pfam04296 1087452003854 putative RNA binding cleft [nucleotide binding]; other site 1087452003855 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1087452003856 NusA N-terminal domain; Region: NusA_N; pfam08529 1087452003857 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 1087452003858 RNA binding site [nucleotide binding]; other site 1087452003859 homodimer interface [polypeptide binding]; other site 1087452003860 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 1087452003861 G-X-X-G motif; other site 1087452003862 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 1087452003863 G-X-X-G motif; other site 1087452003864 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1087452003865 Sm and related proteins; Region: Sm_like; cl00259 1087452003866 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1087452003867 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 1087452003868 dimer interface [polypeptide binding]; other site 1087452003869 motif 1; other site 1087452003870 active site 1087452003871 motif 2; other site 1087452003872 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 1087452003873 putative deacylase active site [active] 1087452003874 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 1087452003875 active site 1087452003876 motif 3; other site 1087452003877 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 1087452003878 anticodon binding site; other site 1087452003879 hypothetical protein; Validated; Region: PRK02101 1087452003880 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1087452003881 active site 1087452003882 SAM binding site [chemical binding]; other site 1087452003883 homodimer interface [polypeptide binding]; other site 1087452003884 hypothetical protein; Validated; Region: PRK00029 1087452003885 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1087452003886 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1087452003887 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1087452003888 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1087452003889 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1087452003890 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1087452003891 DNA binding site [nucleotide binding] 1087452003892 active site 1087452003893 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1087452003894 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1087452003895 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1087452003896 catalytic triad [active] 1087452003897 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1087452003898 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1087452003899 homodimer interface [polypeptide binding]; other site 1087452003900 Walker A motif; other site 1087452003901 ATP binding site [chemical binding]; other site 1087452003902 hydroxycobalamin binding site [chemical binding]; other site 1087452003903 Walker B motif; other site 1087452003904 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 1087452003905 metal ion-dependent adhesion site (MIDAS); other site 1087452003906 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 1087452003907 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 1087452003908 Walker A motif; other site 1087452003909 ATP binding site [chemical binding]; other site 1087452003910 Walker B motif; other site 1087452003911 arginine finger; other site 1087452003912 malate:quinone oxidoreductase; Validated; Region: PRK05257 1087452003913 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1087452003914 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1087452003915 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1087452003916 mycothione reductase; Reviewed; Region: PRK07846 1087452003917 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1087452003918 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1087452003919 cobyric acid synthase; Provisional; Region: PRK00784 1087452003920 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 1087452003921 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1087452003922 catalytic triad [active] 1087452003923 methionine aminopeptidase; Provisional; Region: PRK12318 1087452003924 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 1087452003925 active site 1087452003926 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1087452003927 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1087452003928 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1087452003929 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1087452003930 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1087452003931 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1087452003932 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 1087452003933 active site 1087452003934 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 1087452003935 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 1087452003936 putative substrate binding region [chemical binding]; other site 1087452003937 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1087452003938 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1087452003939 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1087452003940 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1087452003941 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 1087452003942 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 1087452003943 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1087452003944 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1087452003945 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1087452003946 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 1087452003947 hinge region; other site 1087452003948 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 1087452003949 putative nucleotide binding site [chemical binding]; other site 1087452003950 uridine monophosphate binding site [chemical binding]; other site 1087452003951 homohexameric interface [polypeptide binding]; other site 1087452003952 elongation factor Ts; Provisional; Region: tsf; PRK09377 1087452003953 UBA/TS-N domain; Region: UBA; pfam00627 1087452003954 Elongation factor TS; Region: EF_TS; pfam00889 1087452003955 Elongation factor TS; Region: EF_TS; pfam00889 1087452003956 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 1087452003957 rRNA interaction site [nucleotide binding]; other site 1087452003958 S8 interaction site; other site 1087452003959 putative laminin-1 binding site; other site 1087452003960 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1087452003961 Peptidase family M23; Region: Peptidase_M23; pfam01551 1087452003962 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1087452003963 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 1087452003964 active site 1087452003965 DNA binding site [nucleotide binding] 1087452003966 Int/Topo IB signature motif; other site 1087452003967 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1087452003968 DNA protecting protein DprA; Region: dprA; TIGR00732 1087452003969 hypothetical protein; Reviewed; Region: PRK12497 1087452003970 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1087452003971 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1087452003972 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 1087452003973 Walker A motif; other site 1087452003974 ATP binding site [chemical binding]; other site 1087452003975 Walker B motif; other site 1087452003976 arginine finger; other site 1087452003977 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1087452003978 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 1087452003979 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1087452003980 RNA/DNA hybrid binding site [nucleotide binding]; other site 1087452003981 active site 1087452003982 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1087452003983 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 1087452003984 Catalytic site [active] 1087452003985 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 1087452003986 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1087452003987 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1087452003988 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1087452003989 active site 1087452003990 P-loop; other site 1087452003991 phosphorylation site [posttranslational modification] 1087452003992 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1087452003993 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1087452003994 active site 1087452003995 phosphorylation site [posttranslational modification] 1087452003996 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1087452003997 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1087452003998 RimM N-terminal domain; Region: RimM; pfam01782 1087452003999 PRC-barrel domain; Region: PRC; pfam05239 1087452004000 Cupin domain; Region: Cupin_2; cl17218 1087452004001 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 1087452004002 signal recognition particle protein; Provisional; Region: PRK10867 1087452004003 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1087452004004 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 1087452004005 P loop; other site 1087452004006 GTP binding site [chemical binding]; other site 1087452004007 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1087452004008 PII uridylyl-transferase; Provisional; Region: glnD; PRK00227 1087452004009 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1087452004010 metal binding triad; other site 1087452004011 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1087452004012 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1087452004013 Zn2+ binding site [ion binding]; other site 1087452004014 Mg2+ binding site [ion binding]; other site 1087452004015 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1087452004016 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1087452004017 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1087452004018 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1087452004019 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 1087452004020 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1087452004021 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1087452004022 Walker A/P-loop; other site 1087452004023 ATP binding site [chemical binding]; other site 1087452004024 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 1087452004025 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1087452004026 ABC transporter signature motif; other site 1087452004027 Walker B; other site 1087452004028 D-loop; other site 1087452004029 H-loop/switch region; other site 1087452004030 Acylphosphatase; Region: Acylphosphatase; cl00551 1087452004031 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1087452004032 amino acid carrier protein; Region: agcS; TIGR00835 1087452004033 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1087452004034 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1087452004035 DNA binding site [nucleotide binding] 1087452004036 catalytic residue [active] 1087452004037 H2TH interface [polypeptide binding]; other site 1087452004038 putative catalytic residues [active] 1087452004039 turnover-facilitating residue; other site 1087452004040 intercalation triad [nucleotide binding]; other site 1087452004041 8OG recognition residue [nucleotide binding]; other site 1087452004042 putative reading head residues; other site 1087452004043 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1087452004044 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1087452004045 ribonuclease III; Reviewed; Region: rnc; PRK00102 1087452004046 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 1087452004047 dimerization interface [polypeptide binding]; other site 1087452004048 active site 1087452004049 metal binding site [ion binding]; metal-binding site 1087452004050 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 1087452004051 dsRNA binding site [nucleotide binding]; other site 1087452004052 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1087452004053 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1087452004054 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1087452004055 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1087452004056 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1087452004057 hexamer interface [polypeptide binding]; other site 1087452004058 ligand binding site [chemical binding]; other site 1087452004059 putative active site [active] 1087452004060 NAD(P) binding site [chemical binding]; other site 1087452004061 glutamate dehydrogenase; Provisional; Region: PRK09414 1087452004062 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1087452004063 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1087452004064 NAD(P) binding site [chemical binding]; other site 1087452004065 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1087452004066 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 1087452004067 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1087452004068 nucleotide binding site/active site [active] 1087452004069 HIT family signature motif; other site 1087452004070 catalytic residue [active] 1087452004071 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 1087452004072 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1087452004073 metal binding site [ion binding]; metal-binding site 1087452004074 putative dimer interface [polypeptide binding]; other site 1087452004075 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1087452004076 homodimer interface [polypeptide binding]; other site 1087452004077 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1087452004078 active site pocket [active] 1087452004079 Electron transfer DM13; Region: DM13; pfam10517 1087452004080 pyruvate kinase; Provisional; Region: PRK06247 1087452004081 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 1087452004082 domain interfaces; other site 1087452004083 active site 1087452004084 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1087452004085 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 1087452004086 active site 1087452004087 ribulose/triose binding site [chemical binding]; other site 1087452004088 phosphate binding site [ion binding]; other site 1087452004089 substrate (anthranilate) binding pocket [chemical binding]; other site 1087452004090 product (indole) binding pocket [chemical binding]; other site 1087452004091 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; pfam09534 1087452004092 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1087452004093 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 1087452004094 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1087452004095 substrate binding site [chemical binding]; other site 1087452004096 glutamase interaction surface [polypeptide binding]; other site 1087452004097 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1087452004098 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1087452004099 active site 1087452004100 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 1087452004101 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1087452004102 catalytic residues [active] 1087452004103 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1087452004104 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1087452004105 putative active site [active] 1087452004106 oxyanion strand; other site 1087452004107 catalytic triad [active] 1087452004108 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 1087452004109 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1087452004110 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1087452004111 putative active site pocket [active] 1087452004112 4-fold oligomerization interface [polypeptide binding]; other site 1087452004113 metal binding residues [ion binding]; metal-binding site 1087452004114 3-fold/trimer interface [polypeptide binding]; other site 1087452004115 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 1087452004116 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 1087452004117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452004118 homodimer interface [polypeptide binding]; other site 1087452004119 catalytic residue [active] 1087452004120 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1087452004121 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 1087452004122 NAD binding site [chemical binding]; other site 1087452004123 dimerization interface [polypeptide binding]; other site 1087452004124 product binding site; other site 1087452004125 substrate binding site [chemical binding]; other site 1087452004126 zinc binding site [ion binding]; other site 1087452004127 catalytic residues [active] 1087452004128 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1087452004129 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1087452004130 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452004131 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1087452004132 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1087452004133 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1087452004134 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1087452004135 active site 1087452004136 catalytic site [active] 1087452004137 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1087452004138 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 1087452004139 active site 1087452004140 catalytic site [active] 1087452004141 substrate binding site [chemical binding]; other site 1087452004142 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 1087452004143 Dimer interface [polypeptide binding]; other site 1087452004144 BRCT sequence motif; other site 1087452004145 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1087452004146 synthetase active site [active] 1087452004147 NTP binding site [chemical binding]; other site 1087452004148 metal binding site [ion binding]; metal-binding site 1087452004149 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 1087452004150 RNA binding surface [nucleotide binding]; other site 1087452004151 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1087452004152 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1087452004153 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1087452004154 threonine dehydratase; Validated; Region: PRK08639 1087452004155 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1087452004156 tetramer interface [polypeptide binding]; other site 1087452004157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452004158 catalytic residue [active] 1087452004159 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 1087452004160 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1087452004161 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1087452004162 active site 1087452004163 PHP Thumb interface [polypeptide binding]; other site 1087452004164 metal binding site [ion binding]; metal-binding site 1087452004165 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 1087452004166 generic binding surface I; other site 1087452004167 generic binding surface II; other site 1087452004168 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1087452004169 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1087452004170 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 1087452004171 RNA binding surface [nucleotide binding]; other site 1087452004172 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1087452004173 active site 1087452004174 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1087452004175 lipoprotein signal peptidase; Provisional; Region: PRK14787 1087452004176 DNA polymerase IV; Provisional; Region: PRK03348 1087452004177 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1087452004178 active site 1087452004179 DNA binding site [nucleotide binding] 1087452004180 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1087452004181 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1087452004182 HIGH motif; other site 1087452004183 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1087452004184 active site 1087452004185 KMSKS motif; other site 1087452004186 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1087452004187 tRNA binding surface [nucleotide binding]; other site 1087452004188 anticodon binding site; other site 1087452004189 DivIVA protein; Region: DivIVA; pfam05103 1087452004190 DivIVA domain; Region: DivI1A_domain; TIGR03544 1087452004191 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1087452004192 YGGT family; Region: YGGT; cl00508 1087452004193 Protein of unknown function (DUF552); Region: DUF552; cl00775 1087452004194 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1087452004195 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1087452004196 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 1087452004197 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 1087452004198 nucleotide binding site [chemical binding]; other site 1087452004199 SulA interaction site; other site 1087452004200 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1087452004201 Cell division protein FtsQ; Region: FtsQ; pfam03799 1087452004202 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1087452004203 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1087452004204 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1087452004205 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1087452004206 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1087452004207 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 1087452004208 homodimer interface [polypeptide binding]; other site 1087452004209 active site 1087452004210 cell division protein FtsW; Region: ftsW; TIGR02614 1087452004211 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00141 1087452004212 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1087452004213 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1087452004214 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 1087452004215 Mg++ binding site [ion binding]; other site 1087452004216 putative catalytic motif [active] 1087452004217 putative substrate binding site [chemical binding]; other site 1087452004218 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1087452004219 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1087452004220 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1087452004221 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1087452004222 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1087452004223 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1087452004224 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1087452004225 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1087452004226 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1087452004227 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1087452004228 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1087452004229 MraW methylase family; Region: Methyltransf_5; cl17771 1087452004230 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1087452004231 cell division protein MraZ; Reviewed; Region: PRK00326 1087452004232 MraZ protein; Region: MraZ; pfam02381 1087452004233 MraZ protein; Region: MraZ; pfam02381 1087452004234 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 1087452004235 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1087452004236 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1087452004237 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 1087452004238 FAD binding site [chemical binding]; other site 1087452004239 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1087452004240 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1087452004241 substrate binding pocket [chemical binding]; other site 1087452004242 chain length determination region; other site 1087452004243 substrate-Mg2+ binding site; other site 1087452004244 catalytic residues [active] 1087452004245 aspartate-rich region 1; other site 1087452004246 active site lid residues [active] 1087452004247 aspartate-rich region 2; other site 1087452004248 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 1087452004249 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1087452004250 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1087452004251 active site 1087452004252 ATP binding site [chemical binding]; other site 1087452004253 substrate binding site [chemical binding]; other site 1087452004254 activation loop (A-loop); other site 1087452004255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1087452004256 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 1087452004257 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 1087452004258 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 1087452004259 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 1087452004260 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1087452004261 Predicted membrane protein [Function unknown]; Region: COG4763 1087452004262 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1087452004263 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1087452004264 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1087452004265 putative acyl-acceptor binding pocket; other site 1087452004266 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1087452004267 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1087452004268 nucleotide binding site [chemical binding]; other site 1087452004269 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 1087452004270 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1087452004271 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1087452004272 NlpC/P60 family; Region: NLPC_P60; pfam00877 1087452004273 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1087452004274 NlpC/P60 family; Region: NLPC_P60; pfam00877 1087452004275 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1087452004276 heme bH binding site [chemical binding]; other site 1087452004277 intrachain domain interface; other site 1087452004278 heme bL binding site [chemical binding]; other site 1087452004279 interchain domain interface [polypeptide binding]; other site 1087452004280 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 1087452004281 Qo binding site; other site 1087452004282 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1087452004283 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1087452004284 iron-sulfur cluster [ion binding]; other site 1087452004285 [2Fe-2S] cluster binding site [ion binding]; other site 1087452004286 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1087452004287 Cytochrome c; Region: Cytochrom_C; pfam00034 1087452004288 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1087452004289 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 1087452004290 Subunit I/III interface [polypeptide binding]; other site 1087452004291 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 1087452004292 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1087452004293 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1087452004294 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1087452004295 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 1087452004296 active site 1087452004297 dimer interface [polypeptide binding]; other site 1087452004298 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 1087452004299 Ligand Binding Site [chemical binding]; other site 1087452004300 Molecular Tunnel; other site 1087452004301 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1087452004302 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 1087452004303 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 1087452004304 homotrimer interface [polypeptide binding]; other site 1087452004305 Walker A motif; other site 1087452004306 GTP binding site [chemical binding]; other site 1087452004307 Walker B motif; other site 1087452004308 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1087452004309 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1087452004310 putative dimer interface [polypeptide binding]; other site 1087452004311 active site pocket [active] 1087452004312 putative cataytic base [active] 1087452004313 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1087452004314 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1087452004315 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1087452004316 homodimer interface [polypeptide binding]; other site 1087452004317 substrate-cofactor binding pocket; other site 1087452004318 catalytic residue [active] 1087452004319 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1087452004320 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1087452004321 interface (dimer of trimers) [polypeptide binding]; other site 1087452004322 Substrate-binding/catalytic site; other site 1087452004323 Zn-binding sites [ion binding]; other site 1087452004324 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1087452004325 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 1087452004326 E3 interaction surface; other site 1087452004327 lipoyl attachment site [posttranslational modification]; other site 1087452004328 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 1087452004329 E3 interaction surface; other site 1087452004330 lipoyl attachment site [posttranslational modification]; other site 1087452004331 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 1087452004332 E3 interaction surface; other site 1087452004333 lipoyl attachment site [posttranslational modification]; other site 1087452004334 e3 binding domain; Region: E3_binding; pfam02817 1087452004335 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1087452004336 glycine dehydrogenase; Provisional; Region: PRK05367 1087452004337 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1087452004338 tetramer interface [polypeptide binding]; other site 1087452004339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452004340 catalytic residue [active] 1087452004341 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1087452004342 tetramer interface [polypeptide binding]; other site 1087452004343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452004344 catalytic residue [active] 1087452004345 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1087452004346 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1087452004347 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1087452004348 lipoyl attachment site [posttranslational modification]; other site 1087452004349 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1087452004350 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1087452004351 active site 1087452004352 lipoate-protein ligase B; Provisional; Region: PRK14345 1087452004353 lipoyl synthase; Provisional; Region: PRK05481 1087452004354 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 1087452004355 FeS/SAM binding site; other site 1087452004356 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 1087452004357 RDD family; Region: RDD; pfam06271 1087452004358 glutamine synthetase, type I; Region: GlnA; TIGR00653 1087452004359 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1087452004360 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1087452004361 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1087452004362 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 1087452004363 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 1087452004364 DNA binding residues [nucleotide binding] 1087452004365 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1087452004366 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1087452004367 DNA methylase; Region: N6_N4_Mtase; pfam01555 1087452004368 DNA methylase; Region: N6_N4_Mtase; cl17433 1087452004369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452004370 AAA domain; Region: AAA_21; pfam13304 1087452004371 Walker A/P-loop; other site 1087452004372 ATP binding site [chemical binding]; other site 1087452004373 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1087452004374 putative active site [active] 1087452004375 putative metal-binding site [ion binding]; other site 1087452004376 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1087452004377 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1087452004378 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1087452004379 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1087452004380 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1087452004381 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1087452004382 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1087452004383 Walker A/P-loop; other site 1087452004384 ATP binding site [chemical binding]; other site 1087452004385 Q-loop/lid; other site 1087452004386 ABC transporter signature motif; other site 1087452004387 Walker B; other site 1087452004388 D-loop; other site 1087452004389 H-loop/switch region; other site 1087452004390 Htaa; Region: HtaA; pfam04213 1087452004391 Htaa; Region: HtaA; pfam04213 1087452004392 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 1087452004393 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1087452004394 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 1087452004395 IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]; Region: GuaB; COG0516 1087452004396 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 1087452004397 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 1087452004398 active site 1087452004399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1087452004400 Predicted permease [General function prediction only]; Region: COG2056 1087452004401 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1087452004402 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_17; cd04676 1087452004403 nudix motif; other site 1087452004404 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1087452004405 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 1087452004406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452004407 catalytic residue [active] 1087452004408 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 1087452004409 active site 1087452004410 catalytic site [active] 1087452004411 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1087452004412 heme binding pocket [chemical binding]; other site 1087452004413 heme ligand [chemical binding]; other site 1087452004414 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 1087452004415 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1087452004416 metal binding triad; other site 1087452004417 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1087452004418 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1087452004419 metal binding triad; other site 1087452004420 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1087452004421 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1087452004422 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1087452004423 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1087452004424 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 1087452004425 putative active site; other site 1087452004426 putative metal binding residues [ion binding]; other site 1087452004427 signature motif; other site 1087452004428 putative triphosphate binding site [ion binding]; other site 1087452004429 CHAD domain; Region: CHAD; pfam05235 1087452004430 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1087452004431 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1087452004432 RNB domain; Region: RNB; pfam00773 1087452004433 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1087452004434 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 1087452004435 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 1087452004436 RNA/DNA hybrid binding site [nucleotide binding]; other site 1087452004437 active site 1087452004438 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 1087452004439 catalytic core [active] 1087452004440 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1087452004441 Putative zinc ribbon domain; Region: DUF164; pfam02591 1087452004442 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1087452004443 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1087452004444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1087452004445 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1087452004446 hypothetical protein; Provisional; Region: PRK07908 1087452004447 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 1087452004448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452004449 homodimer interface [polypeptide binding]; other site 1087452004450 catalytic residue [active] 1087452004451 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1087452004452 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 1087452004453 motif II; other site 1087452004454 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1087452004455 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1087452004456 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1087452004457 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1087452004458 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 1087452004459 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1087452004460 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1087452004461 dimer interface [polypeptide binding]; other site 1087452004462 TPP-binding site [chemical binding]; other site 1087452004463 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1087452004464 Serine hydrolase; Region: Ser_hydrolase; cl17834 1087452004465 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1087452004466 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1087452004467 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 1087452004468 active site 1087452004469 motif I; other site 1087452004470 motif II; other site 1087452004471 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 1087452004472 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1087452004473 Beta-lactamase; Region: Beta-lactamase; pfam00144 1087452004474 Predicted membrane protein [Function unknown]; Region: COG2860 1087452004475 UPF0126 domain; Region: UPF0126; pfam03458 1087452004476 UPF0126 domain; Region: UPF0126; pfam03458 1087452004477 DNA primase; Validated; Region: dnaG; PRK05667 1087452004478 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1087452004479 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 1087452004480 active site 1087452004481 metal binding site [ion binding]; metal-binding site 1087452004482 interdomain interaction site; other site 1087452004483 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1087452004484 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 1087452004485 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1087452004486 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 1087452004487 glutaminase active site [active] 1087452004488 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 1087452004489 dimer interface [polypeptide binding]; other site 1087452004490 active site 1087452004491 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 1087452004492 dimer interface [polypeptide binding]; other site 1087452004493 active site 1087452004494 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 1087452004495 active site 1087452004496 barstar interaction site; other site 1087452004497 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 1087452004498 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1087452004499 Zn2+ binding site [ion binding]; other site 1087452004500 Mg2+ binding site [ion binding]; other site 1087452004501 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1087452004502 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 1087452004503 putative active site [active] 1087452004504 Repair protein; Region: Repair_PSII; pfam04536 1087452004505 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1087452004506 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 1087452004507 motif 1; other site 1087452004508 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1087452004509 active site 1087452004510 motif 2; other site 1087452004511 motif 3; other site 1087452004512 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 1087452004513 anticodon binding site; other site 1087452004514 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 1087452004515 putative DNA binding site [nucleotide binding]; other site 1087452004516 putative Zn2+ binding site [ion binding]; other site 1087452004517 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1087452004518 metal binding site 2 [ion binding]; metal-binding site 1087452004519 putative DNA binding helix; other site 1087452004520 metal binding site 1 [ion binding]; metal-binding site 1087452004521 dimer interface [polypeptide binding]; other site 1087452004522 structural Zn2+ binding site [ion binding]; other site 1087452004523 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 1087452004524 diiron binding motif [ion binding]; other site 1087452004525 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 1087452004526 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 1087452004527 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1087452004528 putative FPP binding hydrophobic cleft; other site 1087452004529 dimer interface [polypeptide binding]; other site 1087452004530 putative IPP diphosphate binding site; other site 1087452004531 Recombination protein O N terminal; Region: RecO_N; pfam11967 1087452004532 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1087452004533 Recombination protein O C terminal; Region: RecO_C; pfam02565 1087452004534 GTPase Era; Reviewed; Region: era; PRK00089 1087452004535 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1087452004536 G1 box; other site 1087452004537 GTP/Mg2+ binding site [chemical binding]; other site 1087452004538 Switch I region; other site 1087452004539 G2 box; other site 1087452004540 Switch II region; other site 1087452004541 G3 box; other site 1087452004542 G4 box; other site 1087452004543 G5 box; other site 1087452004544 KH domain; Region: KH_2; pfam07650 1087452004545 pyridoxamine kinase; Validated; Region: PRK05756 1087452004546 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1087452004547 dimer interface [polypeptide binding]; other site 1087452004548 pyridoxal binding site [chemical binding]; other site 1087452004549 ATP binding site [chemical binding]; other site 1087452004550 Domain of unknown function DUF21; Region: DUF21; pfam01595 1087452004551 FOG: CBS domain [General function prediction only]; Region: COG0517 1087452004552 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 1087452004553 Transporter associated domain; Region: CorC_HlyC; cl08393 1087452004554 metal-binding heat shock protein; Provisional; Region: PRK00016 1087452004555 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1087452004556 PhoH-like protein; Region: PhoH; pfam02562 1087452004557 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1087452004558 RNA methyltransferase, RsmE family; Region: TIGR00046 1087452004559 chaperone protein DnaJ; Provisional; Region: PRK14278 1087452004560 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 1087452004561 HSP70 interaction site [polypeptide binding]; other site 1087452004562 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1087452004563 Zn binding sites [ion binding]; other site 1087452004564 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1087452004565 dimer interface [polypeptide binding]; other site 1087452004566 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1087452004567 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1087452004568 coproporphyrinogen III oxidase; Validated; Region: PRK05628 1087452004569 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 1087452004570 FeS/SAM binding site; other site 1087452004571 HemN C-terminal domain; Region: HemN_C; pfam06969 1087452004572 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1087452004573 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1087452004574 acyl-activating enzyme (AAE) consensus motif; other site 1087452004575 putative AMP binding site [chemical binding]; other site 1087452004576 putative active site [active] 1087452004577 putative CoA binding site [chemical binding]; other site 1087452004578 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1087452004579 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1087452004580 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1087452004581 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1087452004582 active site 1087452004583 Zn binding site [ion binding]; other site 1087452004584 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1087452004585 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1087452004586 substrate binding pocket [chemical binding]; other site 1087452004587 catalytic triad [active] 1087452004588 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 1087452004589 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 1087452004590 active site 1087452004591 metal binding site [ion binding]; metal-binding site 1087452004592 nudix motif; other site 1087452004593 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1087452004594 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1087452004595 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1087452004596 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 1087452004597 active site 1087452004598 BCCT family transporter; Region: BCCT; pfam02028 1087452004599 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1087452004600 Predicted permeases [General function prediction only]; Region: COG0679 1087452004601 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1087452004602 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 1087452004603 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1087452004604 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 1087452004605 dimer interface [polypeptide binding]; other site 1087452004606 conserved gate region; other site 1087452004607 putative PBP binding loops; other site 1087452004608 ABC-ATPase subunit interface; other site 1087452004609 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1087452004610 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 1087452004611 dimer interface [polypeptide binding]; other site 1087452004612 conserved gate region; other site 1087452004613 putative PBP binding loops; other site 1087452004614 ABC-ATPase subunit interface; other site 1087452004615 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1087452004616 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452004617 Walker A/P-loop; other site 1087452004618 ATP binding site [chemical binding]; other site 1087452004619 Q-loop/lid; other site 1087452004620 ABC transporter signature motif; other site 1087452004621 Walker B; other site 1087452004622 D-loop; other site 1087452004623 H-loop/switch region; other site 1087452004624 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1087452004625 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452004626 Walker A/P-loop; other site 1087452004627 ATP binding site [chemical binding]; other site 1087452004628 Q-loop/lid; other site 1087452004629 ABC transporter signature motif; other site 1087452004630 Walker B; other site 1087452004631 D-loop; other site 1087452004632 H-loop/switch region; other site 1087452004633 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1087452004634 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1087452004635 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1087452004636 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1087452004637 catalytic residue [active] 1087452004638 Sulphur transport; Region: Sulf_transp; pfam04143 1087452004639 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 1087452004640 CPxP motif; other site 1087452004641 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1087452004642 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1087452004643 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1087452004644 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1087452004645 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 1087452004646 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1087452004647 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1087452004648 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 1087452004649 putative substrate translocation pore; other site 1087452004650 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1087452004651 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 1087452004652 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452004653 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 1087452004654 Walker A/P-loop; other site 1087452004655 ATP binding site [chemical binding]; other site 1087452004656 Q-loop/lid; other site 1087452004657 ABC transporter signature motif; other site 1087452004658 Walker B; other site 1087452004659 D-loop; other site 1087452004660 H-loop/switch region; other site 1087452004661 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1087452004662 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452004663 Walker A/P-loop; other site 1087452004664 ATP binding site [chemical binding]; other site 1087452004665 Q-loop/lid; other site 1087452004666 ABC transporter signature motif; other site 1087452004667 Walker B; other site 1087452004668 D-loop; other site 1087452004669 H-loop/switch region; other site 1087452004670 GTP-binding protein LepA; Provisional; Region: PRK05433 1087452004671 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1087452004672 G1 box; other site 1087452004673 putative GEF interaction site [polypeptide binding]; other site 1087452004674 GTP/Mg2+ binding site [chemical binding]; other site 1087452004675 Switch I region; other site 1087452004676 G2 box; other site 1087452004677 G3 box; other site 1087452004678 Switch II region; other site 1087452004679 G4 box; other site 1087452004680 G5 box; other site 1087452004681 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 1087452004682 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 1087452004683 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1087452004684 PemK-like protein; Region: PemK; pfam02452 1087452004685 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1087452004686 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1087452004687 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1087452004688 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 1087452004689 hypothetical protein; Validated; Region: PRK05629 1087452004690 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1087452004691 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1087452004692 Competence protein; Region: Competence; pfam03772 1087452004693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1087452004694 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1087452004695 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 1087452004696 catalytic core [active] 1087452004697 Oligomerisation domain; Region: Oligomerisation; pfam02410 1087452004698 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1087452004699 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1087452004700 active site 1087452004701 (T/H)XGH motif; other site 1087452004702 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1087452004703 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1087452004704 putative catalytic cysteine [active] 1087452004705 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_2; cd12159 1087452004706 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1087452004707 putative ligand binding site [chemical binding]; other site 1087452004708 putative NAD binding site [chemical binding]; other site 1087452004709 catalytic site [active] 1087452004710 Protein of unknown function (DUF454); Region: DUF454; cl01063 1087452004711 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1087452004712 Predicted permease [General function prediction only]; Region: COG2985 1087452004713 TrkA-C domain; Region: TrkA_C; pfam02080 1087452004714 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 1087452004715 gamma-glutamyl kinase; Provisional; Region: PRK05429 1087452004716 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 1087452004717 nucleotide binding site [chemical binding]; other site 1087452004718 homotetrameric interface [polypeptide binding]; other site 1087452004719 putative phosphate binding site [ion binding]; other site 1087452004720 putative allosteric binding site; other site 1087452004721 PUA domain; Region: PUA; pfam01472 1087452004722 GTPase CgtA; Reviewed; Region: obgE; PRK12296 1087452004723 GTP1/OBG; Region: GTP1_OBG; pfam01018 1087452004724 Obg GTPase; Region: Obg; cd01898 1087452004725 G1 box; other site 1087452004726 GTP/Mg2+ binding site [chemical binding]; other site 1087452004727 Switch I region; other site 1087452004728 G2 box; other site 1087452004729 G3 box; other site 1087452004730 Switch II region; other site 1087452004731 G4 box; other site 1087452004732 G5 box; other site 1087452004733 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1087452004734 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1087452004735 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1087452004736 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1087452004737 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1087452004738 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1087452004739 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 1087452004740 homodimer interface [polypeptide binding]; other site 1087452004741 oligonucleotide binding site [chemical binding]; other site 1087452004742 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 1087452004743 active site 1087452004744 multimer interface [polypeptide binding]; other site 1087452004745 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1087452004746 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1087452004747 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 1087452004748 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1087452004749 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1087452004750 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1087452004751 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1087452004752 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1087452004753 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452004754 active site 1087452004755 HIGH motif; other site 1087452004756 nucleotide binding site [chemical binding]; other site 1087452004757 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1087452004758 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1087452004759 active site 1087452004760 KMSKS motif; other site 1087452004761 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1087452004762 tRNA binding surface [nucleotide binding]; other site 1087452004763 anticodon binding site; other site 1087452004764 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1087452004765 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1087452004766 malate dehydrogenase; Provisional; Region: PRK05442 1087452004767 NAD(P) binding site [chemical binding]; other site 1087452004768 dimer interface [polypeptide binding]; other site 1087452004769 malate binding site [chemical binding]; other site 1087452004770 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1087452004771 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452004772 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1087452004773 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1087452004774 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1087452004775 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 1087452004776 Walker A motif; other site 1087452004777 ATP binding site [chemical binding]; other site 1087452004778 Walker B motif; other site 1087452004779 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1087452004780 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1087452004781 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1087452004782 glutamine binding [chemical binding]; other site 1087452004783 catalytic triad [active] 1087452004784 hypothetical protein; Validated; Region: PRK09070 1087452004785 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1087452004786 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1087452004787 Aminotransferase class IV; Region: Aminotran_4; pfam01063 1087452004788 substrate-cofactor binding pocket; other site 1087452004789 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1087452004790 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1087452004791 oligomer interface [polypeptide binding]; other site 1087452004792 active site residues [active] 1087452004793 Clp protease; Region: CLP_protease; pfam00574 1087452004794 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1087452004795 oligomer interface [polypeptide binding]; other site 1087452004796 active site residues [active] 1087452004797 trigger factor; Provisional; Region: tig; PRK01490 1087452004798 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1087452004799 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1087452004800 Pirin-related protein [General function prediction only]; Region: COG1741 1087452004801 Pirin; Region: Pirin; pfam02678 1087452004802 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1087452004803 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1087452004804 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1087452004805 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1087452004806 catalytic residues [active] 1087452004807 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1087452004808 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1087452004809 Zn binding site [ion binding]; other site 1087452004810 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 1087452004811 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1087452004812 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1087452004813 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1087452004814 apolar tunnel; other site 1087452004815 heme binding site [chemical binding]; other site 1087452004816 dimerization interface [polypeptide binding]; other site 1087452004817 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1087452004818 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1087452004819 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 1087452004820 active site 1087452004821 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1087452004822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452004823 Walker A/P-loop; other site 1087452004824 ATP binding site [chemical binding]; other site 1087452004825 Q-loop/lid; other site 1087452004826 ABC transporter signature motif; other site 1087452004827 Walker B; other site 1087452004828 D-loop; other site 1087452004829 H-loop/switch region; other site 1087452004830 ABC transporter; Region: ABC_tran_2; pfam12848 1087452004831 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1087452004832 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1087452004833 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 1087452004834 dimer interface [polypeptide binding]; other site 1087452004835 ssDNA binding site [nucleotide binding]; other site 1087452004836 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1087452004837 YcaO-like family; Region: YcaO; pfam02624 1087452004838 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 1087452004839 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 1087452004840 FMN binding site [chemical binding]; other site 1087452004841 dimer interface [polypeptide binding]; other site 1087452004842 Nitroreductase family; Region: Nitroreductase; pfam00881 1087452004843 dimer interface [polypeptide binding]; other site 1087452004844 SpaB C-terminal domain; Region: SpaB_C; pfam14028 1087452004845 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 1087452004846 YcaO-like family; Region: YcaO; pfam02624 1087452004847 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1087452004848 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1087452004849 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1087452004850 Walker A/P-loop; other site 1087452004851 ATP binding site [chemical binding]; other site 1087452004852 Q-loop/lid; other site 1087452004853 ABC transporter signature motif; other site 1087452004854 Walker B; other site 1087452004855 D-loop; other site 1087452004856 H-loop/switch region; other site 1087452004857 Copper resistance protein D; Region: CopD; pfam05425 1087452004858 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1087452004859 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1087452004860 Carbon starvation protein CstA; Region: CstA; pfam02554 1087452004861 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1087452004862 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1087452004863 active site 1087452004864 catalytic triad [active] 1087452004865 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1087452004866 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1087452004867 NADP binding site [chemical binding]; other site 1087452004868 dimer interface [polypeptide binding]; other site 1087452004869 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1087452004870 classical (c) SDRs; Region: SDR_c; cd05233 1087452004871 NAD(P) binding site [chemical binding]; other site 1087452004872 active site 1087452004873 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1087452004874 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1087452004875 catalytic site [active] 1087452004876 putative active site [active] 1087452004877 putative substrate binding site [chemical binding]; other site 1087452004878 dimer interface [polypeptide binding]; other site 1087452004879 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1087452004880 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1087452004881 active site 1087452004882 inhibitor site; inhibition site 1087452004883 dimer interface [polypeptide binding]; other site 1087452004884 catalytic residue [active] 1087452004885 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 1087452004886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1087452004887 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 1087452004888 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1087452004889 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1087452004890 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1087452004891 NAD(P) binding site [chemical binding]; other site 1087452004892 substrate binding site [chemical binding]; other site 1087452004893 dimer interface [polypeptide binding]; other site 1087452004894 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1087452004895 Isochorismatase family; Region: Isochorismatase; pfam00857 1087452004896 catalytic triad [active] 1087452004897 metal binding site [ion binding]; metal-binding site 1087452004898 conserved cis-peptide bond; other site 1087452004899 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1087452004900 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1087452004901 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1087452004902 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1087452004903 catalytic triad [active] 1087452004904 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1087452004905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452004906 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1087452004907 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1087452004908 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1087452004909 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 1087452004910 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 1087452004911 phosphate binding site [ion binding]; other site 1087452004912 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 1087452004913 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1087452004914 active site 2 [active] 1087452004915 active site 1 [active] 1087452004916 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1087452004917 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1087452004918 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 1087452004919 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 1087452004920 putative NAD(P) binding site [chemical binding]; other site 1087452004921 active site 1087452004922 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 1087452004923 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1087452004924 active site 1087452004925 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1087452004926 Histidine kinase; Region: HisKA_3; pfam07730 1087452004927 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1087452004928 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1087452004929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452004930 active site 1087452004931 phosphorylation site [posttranslational modification] 1087452004932 intermolecular recognition site; other site 1087452004933 dimerization interface [polypeptide binding]; other site 1087452004934 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 1087452004935 DNA binding residues [nucleotide binding] 1087452004936 dimerization interface [polypeptide binding]; other site 1087452004937 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1087452004938 CAAX protease self-immunity; Region: Abi; pfam02517 1087452004939 Glucitol operon activator protein (GutM); Region: GutM; cl01890 1087452004940 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1087452004941 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 1087452004942 active site 1087452004943 dimerization interface [polypeptide binding]; other site 1087452004944 ribonuclease PH; Reviewed; Region: rph; PRK00173 1087452004945 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1087452004946 hexamer interface [polypeptide binding]; other site 1087452004947 active site 1087452004948 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1087452004949 glutamate racemase; Provisional; Region: PRK00865 1087452004950 Rhomboid family; Region: Rhomboid; cl11446 1087452004951 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 1087452004952 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1087452004953 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1087452004954 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1087452004955 active site 1087452004956 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1087452004957 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1087452004958 ATP binding site [chemical binding]; other site 1087452004959 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 1087452004960 putative Mg++ binding site [ion binding]; other site 1087452004961 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1087452004962 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1087452004963 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1087452004964 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1087452004965 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1087452004966 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1087452004967 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 1087452004968 motif II; other site 1087452004969 Winged helix-turn helix; Region: HTH_29; pfam13551 1087452004970 Helix-turn-helix domain; Region: HTH_28; pfam13518 1087452004971 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1087452004972 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1087452004973 D-pathway; other site 1087452004974 Putative ubiquinol binding site [chemical binding]; other site 1087452004975 Low-spin heme (heme b) binding site [chemical binding]; other site 1087452004976 Putative water exit pathway; other site 1087452004977 Binuclear center (heme o3/CuB) [ion binding]; other site 1087452004978 K-pathway; other site 1087452004979 Putative proton exit pathway; other site 1087452004980 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1087452004981 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1087452004982 dimer interface [polypeptide binding]; other site 1087452004983 putative radical transfer pathway; other site 1087452004984 diiron center [ion binding]; other site 1087452004985 tyrosyl radical; other site 1087452004986 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1087452004987 Ferritin-like domain; Region: Ferritin; pfam00210 1087452004988 ferroxidase diiron center [ion binding]; other site 1087452004989 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1087452004990 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1087452004991 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1087452004992 active site 1087452004993 dimer interface [polypeptide binding]; other site 1087452004994 catalytic residues [active] 1087452004995 effector binding site; other site 1087452004996 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1087452004997 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1087452004998 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1087452004999 catalytic residues [active] 1087452005000 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1087452005001 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1087452005002 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 1087452005003 homodimer interface [polypeptide binding]; other site 1087452005004 NAD binding pocket [chemical binding]; other site 1087452005005 ATP binding pocket [chemical binding]; other site 1087452005006 Mg binding site [ion binding]; other site 1087452005007 active-site loop [active] 1087452005008 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1087452005009 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 1087452005010 dimerization interface [polypeptide binding]; other site 1087452005011 putative DNA binding site [nucleotide binding]; other site 1087452005012 putative Zn2+ binding site [ion binding]; other site 1087452005013 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 1087452005014 Thioredoxin; Region: Thioredoxin_4; cl17273 1087452005015 Predicted membrane protein [Function unknown]; Region: COG2259 1087452005016 phosphoglucomutase; Validated; Region: PRK07564 1087452005017 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1087452005018 active site 1087452005019 substrate binding site [chemical binding]; other site 1087452005020 metal binding site [ion binding]; metal-binding site 1087452005021 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK00134 1087452005022 CrcB-like protein; Region: CRCB; pfam02537 1087452005023 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1087452005024 FtsX-like permease family; Region: FtsX; pfam02687 1087452005025 FtsX-like permease family; Region: FtsX; pfam02687 1087452005026 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1087452005027 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1087452005028 Walker A/P-loop; other site 1087452005029 ATP binding site [chemical binding]; other site 1087452005030 Q-loop/lid; other site 1087452005031 ABC transporter signature motif; other site 1087452005032 Walker B; other site 1087452005033 D-loop; other site 1087452005034 H-loop/switch region; other site 1087452005035 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1087452005036 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 1087452005037 hinge; other site 1087452005038 active site 1087452005039 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1087452005040 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1087452005041 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 1087452005042 DNA binding residues [nucleotide binding] 1087452005043 dimerization interface [polypeptide binding]; other site 1087452005044 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1087452005045 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 1087452005046 dimer interface [polypeptide binding]; other site 1087452005047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452005048 catalytic residue [active] 1087452005049 serine O-acetyltransferase; Region: cysE; TIGR01172 1087452005050 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 1087452005051 trimer interface [polypeptide binding]; other site 1087452005052 active site 1087452005053 substrate binding site [chemical binding]; other site 1087452005054 CoA binding site [chemical binding]; other site 1087452005055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1087452005056 Coenzyme A binding pocket [chemical binding]; other site 1087452005057 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 1087452005058 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1087452005059 putative active site [active] 1087452005060 metal binding site [ion binding]; metal-binding site 1087452005061 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1087452005062 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1087452005063 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1087452005064 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1087452005065 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1087452005066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452005067 Walker A/P-loop; other site 1087452005068 ATP binding site [chemical binding]; other site 1087452005069 Q-loop/lid; other site 1087452005070 ABC transporter signature motif; other site 1087452005071 Walker B; other site 1087452005072 D-loop; other site 1087452005073 H-loop/switch region; other site 1087452005074 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1087452005075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452005076 Walker A/P-loop; other site 1087452005077 ATP binding site [chemical binding]; other site 1087452005078 Q-loop/lid; other site 1087452005079 ABC transporter signature motif; other site 1087452005080 Walker B; other site 1087452005081 D-loop; other site 1087452005082 H-loop/switch region; other site 1087452005083 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1087452005084 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1087452005085 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1087452005086 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1087452005087 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 1087452005088 FMN binding site [chemical binding]; other site 1087452005089 active site 1087452005090 catalytic residues [active] 1087452005091 substrate binding site [chemical binding]; other site 1087452005092 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1087452005093 PhoU domain; Region: PhoU; pfam01895 1087452005094 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 1087452005095 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1087452005096 Walker A/P-loop; other site 1087452005097 ATP binding site [chemical binding]; other site 1087452005098 Q-loop/lid; other site 1087452005099 ABC transporter signature motif; other site 1087452005100 Walker B; other site 1087452005101 D-loop; other site 1087452005102 H-loop/switch region; other site 1087452005103 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1087452005104 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 1087452005105 dimer interface [polypeptide binding]; other site 1087452005106 conserved gate region; other site 1087452005107 putative PBP binding loops; other site 1087452005108 ABC-ATPase subunit interface; other site 1087452005109 PBP superfamily domain; Region: PBP_like_2; cl17296 1087452005110 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 1087452005111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1087452005112 Coenzyme A binding pocket [chemical binding]; other site 1087452005113 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1087452005114 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1087452005115 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1087452005116 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1087452005117 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 1087452005118 heme-binding site [chemical binding]; other site 1087452005119 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1087452005120 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1087452005121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452005122 catalytic residue [active] 1087452005123 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1087452005124 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1087452005125 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1087452005126 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 1087452005127 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1087452005128 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 1087452005129 dimerization interface [polypeptide binding]; other site 1087452005130 putative ATP binding site [chemical binding]; other site 1087452005131 amidophosphoribosyltransferase; Provisional; Region: PRK07847 1087452005132 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 1087452005133 active site 1087452005134 tetramer interface [polypeptide binding]; other site 1087452005135 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452005136 active site 1087452005137 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1087452005138 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1087452005139 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1087452005140 dimer interface [polypeptide binding]; other site 1087452005141 putative radical transfer pathway; other site 1087452005142 diiron center [ion binding]; other site 1087452005143 tyrosyl radical; other site 1087452005144 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1087452005145 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1087452005146 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1087452005147 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 1087452005148 dimerization interface [polypeptide binding]; other site 1087452005149 ATP binding site [chemical binding]; other site 1087452005150 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 1087452005151 dimerization interface [polypeptide binding]; other site 1087452005152 ATP binding site [chemical binding]; other site 1087452005153 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1087452005154 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1087452005155 putative active site [active] 1087452005156 catalytic triad [active] 1087452005157 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1087452005158 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1087452005159 catalytic residues [active] 1087452005160 dimer interface [polypeptide binding]; other site 1087452005161 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1087452005162 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1087452005163 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1087452005164 ATP binding site [chemical binding]; other site 1087452005165 active site 1087452005166 substrate binding site [chemical binding]; other site 1087452005167 adenylosuccinate lyase; Region: purB; TIGR00928 1087452005168 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1087452005169 tetramer interface [polypeptide binding]; other site 1087452005170 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1087452005171 TrkA-N domain; Region: TrkA_N; pfam02254 1087452005172 TrkA-C domain; Region: TrkA_C; pfam02080 1087452005173 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1087452005174 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1087452005175 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1087452005176 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1087452005177 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1087452005178 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1087452005179 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1087452005180 nucleotide binding site/active site [active] 1087452005181 HIT family signature motif; other site 1087452005182 catalytic residue [active] 1087452005183 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1087452005184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1087452005185 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 1087452005186 dimerization interface [polypeptide binding]; other site 1087452005187 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 1087452005188 dimer interface [polypeptide binding]; other site 1087452005189 phosphorylation site [posttranslational modification] 1087452005190 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1087452005191 ATP binding site [chemical binding]; other site 1087452005192 Mg2+ binding site [ion binding]; other site 1087452005193 G-X-G motif; other site 1087452005194 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1087452005195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452005196 active site 1087452005197 phosphorylation site [posttranslational modification] 1087452005198 intermolecular recognition site; other site 1087452005199 dimerization interface [polypeptide binding]; other site 1087452005200 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 1087452005201 DNA binding site [nucleotide binding] 1087452005202 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1087452005203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452005204 Predicted esterase [General function prediction only]; Region: COG0627 1087452005205 S-formylglutathione hydrolase; Region: PLN02442 1087452005206 xanthine permease; Region: pbuX; TIGR03173 1087452005207 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 1087452005208 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1087452005209 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 1087452005210 putative active site [active] 1087452005211 pyruvate dehydrogenase; Provisional; Region: PRK06546 1087452005212 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1087452005213 PYR/PP interface [polypeptide binding]; other site 1087452005214 tetramer interface [polypeptide binding]; other site 1087452005215 dimer interface [polypeptide binding]; other site 1087452005216 TPP binding site [chemical binding]; other site 1087452005217 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1087452005218 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1087452005219 TPP-binding site [chemical binding]; other site 1087452005220 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1087452005221 Uncharacterized conserved protein [Function unknown]; Region: COG3610 1087452005222 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1087452005223 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1087452005224 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1087452005225 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 1087452005226 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1087452005227 active site 1087452005228 homotetramer interface [polypeptide binding]; other site 1087452005229 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 1087452005230 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1087452005231 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1087452005232 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1087452005233 DNA binding site [nucleotide binding] 1087452005234 domain linker motif; other site 1087452005235 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 1087452005236 putative dimerization interface [polypeptide binding]; other site 1087452005237 putative ligand binding site [chemical binding]; other site 1087452005238 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1087452005239 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1087452005240 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1087452005241 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1087452005242 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1087452005243 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452005244 active site 1087452005245 HIGH motif; other site 1087452005246 nucleotide binding site [chemical binding]; other site 1087452005247 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1087452005248 KMSKS motif; other site 1087452005249 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1087452005250 tRNA binding surface [nucleotide binding]; other site 1087452005251 anticodon binding site; other site 1087452005252 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 1087452005253 homotrimer interaction site [polypeptide binding]; other site 1087452005254 zinc binding site [ion binding]; other site 1087452005255 CDP-binding sites; other site 1087452005256 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1087452005257 substrate binding site; other site 1087452005258 dimer interface; other site 1087452005259 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1087452005260 DNA repair protein RadA; Provisional; Region: PRK11823 1087452005261 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 1087452005262 Walker A motif; other site 1087452005263 ATP binding site [chemical binding]; other site 1087452005264 Walker B motif; other site 1087452005265 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1087452005266 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 1087452005267 active site clefts [active] 1087452005268 zinc binding site [ion binding]; other site 1087452005269 dimer interface [polypeptide binding]; other site 1087452005270 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1087452005271 endonuclease III; Region: ENDO3c; smart00478 1087452005272 minor groove reading motif; other site 1087452005273 helix-hairpin-helix signature motif; other site 1087452005274 substrate binding pocket [chemical binding]; other site 1087452005275 active site 1087452005276 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1087452005277 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1087452005278 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1087452005279 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 1087452005280 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1087452005281 Clp amino terminal domain; Region: Clp_N; pfam02861 1087452005282 Clp amino terminal domain; Region: Clp_N; pfam02861 1087452005283 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 1087452005284 Walker A motif; other site 1087452005285 ATP binding site [chemical binding]; other site 1087452005286 Walker B motif; other site 1087452005287 arginine finger; other site 1087452005288 UvrB/uvrC motif; Region: UVR; pfam02151 1087452005289 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 1087452005290 Walker A motif; other site 1087452005291 ATP binding site [chemical binding]; other site 1087452005292 Walker B motif; other site 1087452005293 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1087452005294 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 1087452005295 putative substrate translocation pore; other site 1087452005296 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1087452005297 active site 1087452005298 tetramer interface [polypeptide binding]; other site 1087452005299 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1087452005300 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1087452005301 CAAX protease self-immunity; Region: Abi; pfam02517 1087452005302 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1087452005303 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 1087452005304 dimer interface [polypeptide binding]; other site 1087452005305 putative anticodon binding site; other site 1087452005306 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 1087452005307 motif 1; other site 1087452005308 dimer interface [polypeptide binding]; other site 1087452005309 active site 1087452005310 motif 2; other site 1087452005311 motif 3; other site 1087452005312 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1087452005313 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1087452005314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1087452005315 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1087452005316 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1087452005317 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1087452005318 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1087452005319 NAD(P) binding site [chemical binding]; other site 1087452005320 catalytic residues [active] 1087452005321 BCCT family transporter; Region: BCCT; cl00569 1087452005322 choline dehydrogenase; Validated; Region: PRK02106 1087452005323 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1087452005324 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1087452005325 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452005326 active site 1087452005327 nucleotide binding site [chemical binding]; other site 1087452005328 HIGH motif; other site 1087452005329 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452005330 KMSKS motif; other site 1087452005331 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 1087452005332 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 1087452005333 catalytic center binding site [active] 1087452005334 ATP binding site [chemical binding]; other site 1087452005335 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 1087452005336 homooctamer interface [polypeptide binding]; other site 1087452005337 active site 1087452005338 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 1087452005339 dihydropteroate synthase; Region: DHPS; TIGR01496 1087452005340 substrate binding pocket [chemical binding]; other site 1087452005341 dimer interface [polypeptide binding]; other site 1087452005342 inhibitor binding site; inhibition site 1087452005343 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 1087452005344 GTP cyclohydrolase I; Provisional; Region: PLN03044 1087452005345 homodecamer interface [polypeptide binding]; other site 1087452005346 active site 1087452005347 putative catalytic site residues [active] 1087452005348 zinc binding site [ion binding]; other site 1087452005349 GTP-CH-I/GFRP interaction surface; other site 1087452005350 FtsH Extracellular; Region: FtsH_ext; pfam06480 1087452005351 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1087452005352 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 1087452005353 Walker A motif; other site 1087452005354 ATP binding site [chemical binding]; other site 1087452005355 Walker B motif; other site 1087452005356 arginine finger; other site 1087452005357 Peptidase family M41; Region: Peptidase_M41; pfam01434 1087452005358 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452005359 active site 1087452005360 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1087452005361 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 1087452005362 Ligand Binding Site [chemical binding]; other site 1087452005363 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1087452005364 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1087452005365 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1087452005366 dimer interface [polypeptide binding]; other site 1087452005367 substrate binding site [chemical binding]; other site 1087452005368 metal binding sites [ion binding]; metal-binding site 1087452005369 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 1087452005370 active site residue [active] 1087452005371 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1087452005372 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1087452005373 Secretory lipase; Region: LIP; pfam03583 1087452005374 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1087452005375 MarR family; Region: MarR_2; pfam12802 1087452005376 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1087452005377 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1087452005378 acyl-activating enzyme (AAE) consensus motif; other site 1087452005379 AMP binding site [chemical binding]; other site 1087452005380 active site 1087452005381 CoA binding site [chemical binding]; other site 1087452005382 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1087452005383 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 1087452005384 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 1087452005385 putative trimer interface [polypeptide binding]; other site 1087452005386 putative CoA binding site [chemical binding]; other site 1087452005387 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 1087452005388 putative trimer interface [polypeptide binding]; other site 1087452005389 putative CoA binding site [chemical binding]; other site 1087452005390 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1087452005391 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1087452005392 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 1087452005393 ring oligomerisation interface [polypeptide binding]; other site 1087452005394 ATP/Mg binding site [chemical binding]; other site 1087452005395 stacking interactions; other site 1087452005396 hinge regions; other site 1087452005397 hypothetical protein; Provisional; Region: PRK07907 1087452005398 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 1087452005399 active site 1087452005400 metal binding site [ion binding]; metal-binding site 1087452005401 dimer interface [polypeptide binding]; other site 1087452005402 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 1087452005403 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1087452005404 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1087452005405 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1087452005406 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1087452005407 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07946 1087452005408 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 1087452005409 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1087452005410 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1087452005411 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK07948 1087452005412 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12592 1087452005413 carboxylate-amine ligase; Provisional; Region: PRK13517 1087452005414 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1087452005415 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1087452005416 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 1087452005417 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 1087452005418 active site 1087452005419 catalytic residues [active] 1087452005420 metal binding site [ion binding]; metal-binding site 1087452005421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1087452005422 Coenzyme A binding pocket [chemical binding]; other site 1087452005423 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1087452005424 putative catalytic site [active] 1087452005425 putative phosphate binding site [ion binding]; other site 1087452005426 active site 1087452005427 metal binding site A [ion binding]; metal-binding site 1087452005428 DNA binding site [nucleotide binding] 1087452005429 putative AP binding site [nucleotide binding]; other site 1087452005430 putative metal binding site B [ion binding]; other site 1087452005431 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1087452005432 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 1087452005433 putative active site [active] 1087452005434 catalytic site [active] 1087452005435 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1087452005436 putative active site [active] 1087452005437 catalytic site [active] 1087452005438 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1087452005439 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1087452005440 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1087452005441 Walker A/P-loop; other site 1087452005442 ATP binding site [chemical binding]; other site 1087452005443 Q-loop/lid; other site 1087452005444 ABC transporter signature motif; other site 1087452005445 Walker B; other site 1087452005446 D-loop; other site 1087452005447 H-loop/switch region; other site 1087452005448 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1087452005449 nudix motif; other site 1087452005450 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1087452005451 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1087452005452 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 1087452005453 substrate binding pocket [chemical binding]; other site 1087452005454 membrane-bound complex binding site; other site 1087452005455 hinge residues; other site 1087452005456 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1087452005457 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1087452005458 active site 1087452005459 ATP binding site [chemical binding]; other site 1087452005460 substrate binding site [chemical binding]; other site 1087452005461 activation loop (A-loop); other site 1087452005462 propionate/acetate kinase; Provisional; Region: PRK12379 1087452005463 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1087452005464 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1087452005465 ferredoxin-NADP+ reductase; Region: PLN02852 1087452005466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1087452005467 Coenzyme A binding pocket [chemical binding]; other site 1087452005468 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1087452005469 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1087452005470 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452005471 active site 1087452005472 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 1087452005473 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1087452005474 catalytic residues [active] 1087452005475 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1087452005476 ResB-like family; Region: ResB; pfam05140 1087452005477 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1087452005478 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 1087452005479 TPR motif; other site 1087452005480 TPR repeat; Region: TPR_11; pfam13414 1087452005481 binding surface 1087452005482 Cytochrome c552; Region: Cytochrom_C552; pfam02335 1087452005483 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1087452005484 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 1087452005485 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1087452005486 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 1087452005487 GDP-binding site [chemical binding]; other site 1087452005488 ACT binding site; other site 1087452005489 IMP binding site; other site 1087452005490 Predicted membrane protein [Function unknown]; Region: COG4129 1087452005491 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1087452005492 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1087452005493 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1087452005494 Walker A/P-loop; other site 1087452005495 ATP binding site [chemical binding]; other site 1087452005496 Q-loop/lid; other site 1087452005497 ABC transporter signature motif; other site 1087452005498 Walker B; other site 1087452005499 D-loop; other site 1087452005500 H-loop/switch region; other site 1087452005501 Predicted transcriptional regulators [Transcription]; Region: COG1695 1087452005502 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1087452005503 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1087452005504 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1087452005505 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1087452005506 Cna protein B-type domain; Region: Cna_B; pfam05738 1087452005507 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1087452005508 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1087452005509 active site 1087452005510 intersubunit interface [polypeptide binding]; other site 1087452005511 zinc binding site [ion binding]; other site 1087452005512 Na+ binding site [ion binding]; other site 1087452005513 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 1087452005514 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1087452005515 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1087452005516 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1087452005517 active site 1087452005518 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1087452005519 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 1087452005520 active site residue [active] 1087452005521 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1087452005522 active site residue [active] 1087452005523 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1087452005524 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1087452005525 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1087452005526 active site 1087452005527 catalytic site [active] 1087452005528 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1087452005529 Cna protein B-type domain; Region: Cna_B; pfam05738 1087452005530 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1087452005531 active site 1087452005532 catalytic site [active] 1087452005533 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1087452005534 Clp amino terminal domain; Region: Clp_N; pfam02861 1087452005535 Clp amino terminal domain; Region: Clp_N; pfam02861 1087452005536 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 1087452005537 Walker A motif; other site 1087452005538 ATP binding site [chemical binding]; other site 1087452005539 Walker B motif; other site 1087452005540 arginine finger; other site 1087452005541 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 1087452005542 Walker A motif; other site 1087452005543 ATP binding site [chemical binding]; other site 1087452005544 Walker B motif; other site 1087452005545 arginine finger; other site 1087452005546 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1087452005547 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1087452005548 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1087452005549 Walker A/P-loop; other site 1087452005550 ATP binding site [chemical binding]; other site 1087452005551 Q-loop/lid; other site 1087452005552 ABC transporter signature motif; other site 1087452005553 Walker B; other site 1087452005554 D-loop; other site 1087452005555 H-loop/switch region; other site 1087452005556 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1087452005557 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1087452005558 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 1087452005559 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 1087452005560 FAD binding pocket [chemical binding]; other site 1087452005561 conserved FAD binding motif [chemical binding]; other site 1087452005562 phosphate binding motif [ion binding]; other site 1087452005563 beta-alpha-beta structure motif; other site 1087452005564 NAD binding pocket [chemical binding]; other site 1087452005565 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1087452005566 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1087452005567 FtsX-like permease family; Region: FtsX; pfam02687 1087452005568 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1087452005569 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1087452005570 Walker A/P-loop; other site 1087452005571 ATP binding site [chemical binding]; other site 1087452005572 Q-loop/lid; other site 1087452005573 ABC transporter signature motif; other site 1087452005574 Walker B; other site 1087452005575 D-loop; other site 1087452005576 H-loop/switch region; other site 1087452005577 HlyD family secretion protein; Region: HlyD_3; pfam13437 1087452005578 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1087452005579 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1087452005580 active site 1087452005581 catalytic triad [active] 1087452005582 dimer interface [polypeptide binding]; other site 1087452005583 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 1087452005584 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1087452005585 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1087452005586 NAD binding site [chemical binding]; other site 1087452005587 substrate binding site [chemical binding]; other site 1087452005588 catalytic Zn binding site [ion binding]; other site 1087452005589 tetramer interface [polypeptide binding]; other site 1087452005590 structural Zn binding site [ion binding]; other site 1087452005591 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 1087452005592 active site 1087452005593 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1087452005594 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1087452005595 DNA binding residues [nucleotide binding] 1087452005596 chaperone protein DnaJ; Provisional; Region: PRK14279 1087452005597 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 1087452005598 HSP70 interaction site [polypeptide binding]; other site 1087452005599 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1087452005600 Zn binding sites [ion binding]; other site 1087452005601 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1087452005602 dimer interface [polypeptide binding]; other site 1087452005603 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1087452005604 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 1087452005605 dimer interface [polypeptide binding]; other site 1087452005606 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1087452005607 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1087452005608 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1087452005609 nucleotide binding site [chemical binding]; other site 1087452005610 NEF interaction site [polypeptide binding]; other site 1087452005611 SBD interface [polypeptide binding]; other site 1087452005612 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1087452005613 active site 1087452005614 catalytic site [active] 1087452005615 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1087452005616 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1087452005617 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452005618 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1087452005619 Walker A/P-loop; other site 1087452005620 ATP binding site [chemical binding]; other site 1087452005621 Q-loop/lid; other site 1087452005622 ABC transporter signature motif; other site 1087452005623 Walker B; other site 1087452005624 D-loop; other site 1087452005625 H-loop/switch region; other site 1087452005626 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1087452005627 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 1087452005628 dimer interface [polypeptide binding]; other site 1087452005629 conserved gate region; other site 1087452005630 putative PBP binding loops; other site 1087452005631 ABC-ATPase subunit interface; other site 1087452005632 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1087452005633 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1087452005634 adrenodoxin reductase; Provisional; Region: PTZ00188 1087452005635 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1087452005636 4Fe-4S binding domain; Region: Fer4; cl02805 1087452005637 4Fe-4S binding domain; Region: Fer4; pfam00037 1087452005638 Cysteine-rich domain; Region: CCG; pfam02754 1087452005639 Cysteine-rich domain; Region: CCG; pfam02754 1087452005640 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 1087452005641 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 1087452005642 dimerization interface [polypeptide binding]; other site 1087452005643 putative DNA binding site [nucleotide binding]; other site 1087452005644 putative Zn2+ binding site [ion binding]; other site 1087452005645 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1087452005646 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452005647 Walker A/P-loop; other site 1087452005648 ATP binding site [chemical binding]; other site 1087452005649 Q-loop/lid; other site 1087452005650 ABC transporter signature motif; other site 1087452005651 Walker B; other site 1087452005652 D-loop; other site 1087452005653 H-loop/switch region; other site 1087452005654 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1087452005655 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1087452005656 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 1087452005657 putative PBP binding regions; other site 1087452005658 ABC-ATPase subunit interface; other site 1087452005659 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1087452005660 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1087452005661 intersubunit interface [polypeptide binding]; other site 1087452005662 UreD urease accessory protein; Region: UreD; cl00530 1087452005663 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 1087452005664 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1087452005665 UreF; Region: UreF; pfam01730 1087452005666 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1087452005667 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1087452005668 dimer interface [polypeptide binding]; other site 1087452005669 catalytic residues [active] 1087452005670 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1087452005671 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1087452005672 subunit interactions [polypeptide binding]; other site 1087452005673 active site 1087452005674 flap region; other site 1087452005675 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1087452005676 gamma-beta subunit interface [polypeptide binding]; other site 1087452005677 alpha-beta subunit interface [polypeptide binding]; other site 1087452005678 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1087452005679 alpha-gamma subunit interface [polypeptide binding]; other site 1087452005680 beta-gamma subunit interface [polypeptide binding]; other site 1087452005681 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1087452005682 EamA-like transporter family; Region: EamA; pfam00892 1087452005683 EamA-like transporter family; Region: EamA; pfam00892 1087452005684 aminotransferase AlaT; Validated; Region: PRK09265 1087452005685 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 1087452005686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452005687 homodimer interface [polypeptide binding]; other site 1087452005688 catalytic residue [active] 1087452005689 YibE/F-like protein; Region: YibE_F; pfam07907 1087452005690 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 1087452005691 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1087452005692 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 1087452005693 dimer interface [polypeptide binding]; other site 1087452005694 putative anticodon binding site; other site 1087452005695 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 1087452005696 motif 1; other site 1087452005697 dimer interface [polypeptide binding]; other site 1087452005698 active site 1087452005699 motif 2; other site 1087452005700 motif 3; other site 1087452005701 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1087452005702 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1087452005703 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1087452005704 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1087452005705 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1087452005706 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1087452005707 trimer interface [polypeptide binding]; other site 1087452005708 active site 1087452005709 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1087452005710 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1087452005711 NAD(P) binding site [chemical binding]; other site 1087452005712 catalytic residues [active] 1087452005713 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 1087452005714 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1087452005715 VanW like protein; Region: VanW; pfam04294 1087452005716 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1087452005717 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1087452005718 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 1087452005719 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1087452005720 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 1087452005721 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1087452005722 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 1087452005723 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 1087452005724 S-adenosylmethionine binding site [chemical binding]; other site 1087452005725 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 1087452005726 active site 1087452005727 substrate-binding site [chemical binding]; other site 1087452005728 metal-binding site [ion binding] 1087452005729 GTP binding site [chemical binding]; other site 1087452005730 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 1087452005731 S-adenosylmethionine binding site [chemical binding]; other site 1087452005732 LabA_like proteins; Region: LabA_like; cd06167 1087452005733 putative metal binding site [ion binding]; other site 1087452005734 MMPL family; Region: MMPL; pfam03176 1087452005735 MMPL family; Region: MMPL; pfam03176 1087452005736 Predicted integral membrane protein [Function unknown]; Region: COG0392 1087452005737 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 1087452005738 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1087452005739 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1087452005740 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1087452005741 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1087452005742 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 1087452005743 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1087452005744 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1087452005745 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1087452005746 active site 1087452005747 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1087452005748 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1087452005749 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 1087452005750 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1087452005751 acyl-activating enzyme (AAE) consensus motif; other site 1087452005752 active site 1087452005753 Cutinase; Region: Cutinase; pfam01083 1087452005754 Putative esterase; Region: Esterase; pfam00756 1087452005755 S-formylglutathione hydrolase; Region: PLN02442 1087452005756 LGFP repeat; Region: LGFP; pfam08310 1087452005757 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1087452005758 LGFP repeat; Region: LGFP; pfam08310 1087452005759 LGFP repeat; Region: LGFP; pfam08310 1087452005760 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1087452005761 Predicted esterase [General function prediction only]; Region: COG0627 1087452005762 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1087452005763 UbiA prenyltransferase family; Region: UbiA; pfam01040 1087452005764 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1087452005765 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1087452005766 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1087452005767 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 1087452005768 Repair protein; Region: Repair_PSII; pfam04536 1087452005769 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1087452005770 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1087452005771 active site 1087452005772 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 1087452005773 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1087452005774 active site 1087452005775 catalytic site [active] 1087452005776 metal binding site [ion binding]; metal-binding site 1087452005777 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1087452005778 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 1087452005779 putative substrate translocation pore; other site 1087452005780 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1087452005781 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1087452005782 UDP-galactopyranose mutase; Region: GLF; pfam03275 1087452005783 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1087452005784 ABC transporter; Region: ABC_tran; pfam00005 1087452005785 Q-loop/lid; other site 1087452005786 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1087452005787 ABC transporter signature motif; other site 1087452005788 Walker B; other site 1087452005789 D-loop; other site 1087452005790 H-loop/switch region; other site 1087452005791 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1087452005792 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 1087452005793 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1087452005794 putative PBP binding regions; other site 1087452005795 ABC-ATPase subunit interface; other site 1087452005796 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1087452005797 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 1087452005798 putative binding site residues; other site 1087452005799 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1087452005800 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1087452005801 amidase catalytic site [active] 1087452005802 Zn binding residues [ion binding]; other site 1087452005803 substrate binding site [chemical binding]; other site 1087452005804 LGFP repeat; Region: LGFP; pfam08310 1087452005805 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 1087452005806 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1087452005807 active site 1087452005808 motif I; other site 1087452005809 motif II; other site 1087452005810 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 1087452005811 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1087452005812 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1087452005813 putative acyl-acceptor binding pocket; other site 1087452005814 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1087452005815 seryl-tRNA synthetase; Provisional; Region: PRK05431 1087452005816 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 1087452005817 dimer interface [polypeptide binding]; other site 1087452005818 active site 1087452005819 motif 1; other site 1087452005820 motif 2; other site 1087452005821 motif 3; other site 1087452005822 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1087452005823 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1087452005824 DNA-binding site [nucleotide binding]; DNA binding site 1087452005825 UTRA domain; Region: UTRA; pfam07702 1087452005826 Septum formation; Region: Septum_form; pfam13845 1087452005827 Septum formation; Region: Septum_form; pfam13845 1087452005828 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1087452005829 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 1087452005830 catalytic core [active] 1087452005831 Prephenate dehydratase; Region: PDT; pfam00800 1087452005832 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 1087452005833 putative L-Phe binding site [chemical binding]; other site 1087452005834 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1087452005835 Amidase; Region: Amidase; cl11426 1087452005836 CAAX protease self-immunity; Region: Abi; pfam02517 1087452005837 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1087452005838 Htaa; Region: HtaA; pfam04213 1087452005839 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1087452005840 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 1087452005841 putative active site [active] 1087452005842 catalytic site [active] 1087452005843 putative metal binding site [ion binding]; other site 1087452005844 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1087452005845 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1087452005846 Nucleoside recognition; Region: Gate; pfam07670 1087452005847 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1087452005848 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 1087452005849 active site 1087452005850 catalytic motif [active] 1087452005851 Zn binding site [ion binding]; other site 1087452005852 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 1087452005853 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1087452005854 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1087452005855 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1087452005856 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1087452005857 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1087452005858 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1087452005859 NAD binding site [chemical binding]; other site 1087452005860 dimer interface [polypeptide binding]; other site 1087452005861 substrate binding site [chemical binding]; other site 1087452005862 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1087452005863 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1087452005864 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1087452005865 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1087452005866 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1087452005867 Predicted flavoprotein [General function prediction only]; Region: COG0431 1087452005868 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 1087452005869 putative substrate translocation pore; other site 1087452005870 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1087452005871 Abi-like protein; Region: Abi_2; pfam07751 1087452005872 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1087452005873 homodimer interface [polypeptide binding]; other site 1087452005874 chemical substrate binding site [chemical binding]; other site 1087452005875 oligomer interface [polypeptide binding]; other site 1087452005876 metal binding site [ion binding]; metal-binding site 1087452005877 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 1087452005878 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 1087452005879 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1087452005880 Lsr2; Region: Lsr2; pfam11774 1087452005881 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1087452005882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452005883 active site 1087452005884 phosphorylation site [posttranslational modification] 1087452005885 intermolecular recognition site; other site 1087452005886 dimerization interface [polypeptide binding]; other site 1087452005887 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 1087452005888 DNA binding residues [nucleotide binding] 1087452005889 dimerization interface [polypeptide binding]; other site 1087452005890 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1087452005891 Histidine kinase; Region: HisKA_3; pfam07730 1087452005892 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1087452005893 ATP binding site [chemical binding]; other site 1087452005894 Mg2+ binding site [ion binding]; other site 1087452005895 G-X-G motif; other site 1087452005896 Domain of unknown function (DUF2020); Region: DUF2020; pfam09449 1087452005897 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 1087452005898 active site 1087452005899 catalytic site [active] 1087452005900 putative inner membrane protein translocase component YidC; Validated; Region: PRK00247 1087452005901 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1087452005902 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1087452005903 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1087452005904 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1087452005905 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1087452005906 Ligand Binding Site [chemical binding]; other site 1087452005907 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1087452005908 Ligand Binding Site [chemical binding]; other site 1087452005909 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1087452005910 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1087452005911 active site 1087452005912 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1087452005913 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1087452005914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1087452005915 Walker A/P-loop; other site 1087452005916 ATP binding site [chemical binding]; other site 1087452005917 Q-loop/lid; other site 1087452005918 ABC transporter signature motif; other site 1087452005919 Walker B; other site 1087452005920 D-loop; other site 1087452005921 H-loop/switch region; other site 1087452005922 Predicted transcriptional regulators [Transcription]; Region: COG1725 1087452005923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1087452005924 DNA-binding site [nucleotide binding]; DNA binding site 1087452005925 LabA_like proteins; Region: LabA_like; cd06167 1087452005926 putative metal binding site [ion binding]; other site 1087452005927 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1087452005928 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1087452005929 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 1087452005930 catalytic residues [active] 1087452005931 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 1087452005932 metal-binding site [ion binding] 1087452005933 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1087452005934 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 1087452005935 metal-binding site [ion binding] 1087452005936 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1087452005937 benzoate transport; Region: 2A0115; TIGR00895 1087452005938 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 1087452005939 putative substrate translocation pore; other site 1087452005940 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 1087452005941 replicative DNA helicase; Provisional; Region: PRK05636 1087452005942 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1087452005943 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 1087452005944 Walker A motif; other site 1087452005945 ATP binding site [chemical binding]; other site 1087452005946 Walker B motif; other site 1087452005947 DNA binding loops [nucleotide binding] 1087452005948 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1087452005949 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1087452005950 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1087452005951 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1087452005952 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1087452005953 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1087452005954 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 1087452005955 dimer interface [polypeptide binding]; other site 1087452005956 ssDNA binding site [nucleotide binding]; other site 1087452005957 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1087452005958 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1087452005959 Predicted integral membrane protein [Function unknown]; Region: COG5650 1087452005960 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1087452005961 Transglycosylase; Region: Transgly; pfam00912 1087452005962 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1087452005963 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1087452005964 MarR family; Region: MarR; pfam01047 1087452005965 MarR family; Region: MarR_2; cl17246 1087452005966 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1087452005967 Ligand Binding Site [chemical binding]; other site 1087452005968 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1087452005969 Ligand Binding Site [chemical binding]; other site 1087452005970 short chain dehydrogenase; Provisional; Region: PRK08219 1087452005971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1087452005972 NAD(P) binding site [chemical binding]; other site 1087452005973 active site 1087452005974 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1087452005975 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1087452005976 active site residue [active] 1087452005977 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1087452005978 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1087452005979 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1087452005980 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1087452005981 dimerization interface [polypeptide binding]; other site 1087452005982 DPS ferroxidase diiron center [ion binding]; other site 1087452005983 ion pore; other site 1087452005984 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1087452005985 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 1087452005986 putative DNA binding site [nucleotide binding]; other site 1087452005987 catalytic residue [active] 1087452005988 putative H2TH interface [polypeptide binding]; other site 1087452005989 putative catalytic residues [active] 1087452005990 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1087452005991 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1087452005992 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 1087452005993 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 1087452005994 putative substrate binding site [chemical binding]; other site 1087452005995 putative ATP binding site [chemical binding]; other site 1087452005996 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 1087452005997 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1087452005998 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1087452005999 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1087452006000 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1087452006001 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1087452006002 HIGH motif; other site 1087452006003 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1087452006004 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452006005 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1087452006006 active site 1087452006007 KMSKS motif; other site 1087452006008 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1087452006009 tRNA binding surface [nucleotide binding]; other site 1087452006010 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1087452006011 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1087452006012 Walker A/P-loop; other site 1087452006013 ATP binding site [chemical binding]; other site 1087452006014 Q-loop/lid; other site 1087452006015 ABC transporter signature motif; other site 1087452006016 Walker B; other site 1087452006017 D-loop; other site 1087452006018 H-loop/switch region; other site 1087452006019 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1087452006020 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1087452006021 FtsX-like permease family; Region: FtsX; pfam02687 1087452006022 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1087452006023 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1087452006024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1087452006025 Histidine kinase; Region: HisKA_3; pfam07730 1087452006026 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1087452006027 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1087452006028 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1087452006029 active site 1087452006030 phosphorylation site [posttranslational modification] 1087452006031 intermolecular recognition site; other site 1087452006032 dimerization interface [polypeptide binding]; other site 1087452006033 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 1087452006034 DNA binding residues [nucleotide binding] 1087452006035 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1087452006036 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 1087452006037 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1087452006038 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1087452006039 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1087452006040 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1087452006041 active site 1087452006042 trimer interface [polypeptide binding]; other site 1087452006043 allosteric site; other site 1087452006044 active site lid [active] 1087452006045 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1087452006046 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1087452006047 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 1087452006048 active site 1087452006049 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1087452006050 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1087452006051 putative active site cavity [active] 1087452006052 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1087452006053 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1087452006054 nucleotide binding site [chemical binding]; other site 1087452006055 FCD domain; Region: FCD; pfam07729 1087452006056 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1087452006057 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1087452006058 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1087452006059 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 1087452006060 dimer interface [polypeptide binding]; other site 1087452006061 conserved gate region; other site 1087452006062 putative PBP binding loops; other site 1087452006063 ABC-ATPase subunit interface; other site 1087452006064 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1087452006065 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 1087452006066 dimer interface [polypeptide binding]; other site 1087452006067 conserved gate region; other site 1087452006068 putative PBP binding loops; other site 1087452006069 ABC-ATPase subunit interface; other site 1087452006070 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1087452006071 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452006072 Walker A/P-loop; other site 1087452006073 ATP binding site [chemical binding]; other site 1087452006074 Q-loop/lid; other site 1087452006075 ABC transporter signature motif; other site 1087452006076 Walker B; other site 1087452006077 D-loop; other site 1087452006078 H-loop/switch region; other site 1087452006079 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1087452006080 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1087452006081 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1087452006082 Walker A/P-loop; other site 1087452006083 ATP binding site [chemical binding]; other site 1087452006084 Q-loop/lid; other site 1087452006085 ABC transporter signature motif; other site 1087452006086 Walker B; other site 1087452006087 D-loop; other site 1087452006088 H-loop/switch region; other site 1087452006089 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1087452006090 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1087452006091 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1087452006092 inhibitor site; inhibition site 1087452006093 active site 1087452006094 dimer interface [polypeptide binding]; other site 1087452006095 catalytic residue [active] 1087452006096 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1087452006097 active site 1087452006098 catalytic residues [active] 1087452006099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 1087452006100 hypothetical protein; Provisional; Region: PRK13663 1087452006101 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1087452006102 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 1087452006103 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1087452006104 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1087452006105 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1087452006106 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1087452006107 substrate binding pocket [chemical binding]; other site 1087452006108 substrate-Mg2+ binding site; other site 1087452006109 aspartate-rich region 1; other site 1087452006110 aspartate-rich region 2; other site 1087452006111 phytoene desaturase; Region: crtI_fam; TIGR02734 1087452006112 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1087452006113 SdpI/YhfL protein family; Region: SdpI; pfam13630 1087452006114 anthranilate synthase component I; Provisional; Region: PRK13564 1087452006115 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1087452006116 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1087452006117 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1087452006118 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1087452006119 glutamine binding [chemical binding]; other site 1087452006120 catalytic triad [active] 1087452006121 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1087452006122 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1087452006123 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1087452006124 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1087452006125 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 1087452006126 active site 1087452006127 ribulose/triose binding site [chemical binding]; other site 1087452006128 phosphate binding site [ion binding]; other site 1087452006129 substrate (anthranilate) binding pocket [chemical binding]; other site 1087452006130 product (indole) binding pocket [chemical binding]; other site 1087452006131 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 1087452006132 active site 1087452006133 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1087452006134 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 1087452006135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1087452006136 catalytic residue [active] 1087452006137 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1087452006138 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 1087452006139 substrate binding site [chemical binding]; other site 1087452006140 active site 1087452006141 catalytic residues [active] 1087452006142 heterodimer interface [polypeptide binding]; other site 1087452006143 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1087452006144 iron-sulfur cluster [ion binding]; other site 1087452006145 [2Fe-2S] cluster binding site [ion binding]; other site 1087452006146 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1087452006147 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1087452006148 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1087452006149 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1087452006150 hypothetical protein; Validated; Region: PRK00228 1087452006151 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 1087452006152 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1087452006153 active site 1087452006154 NTP binding site [chemical binding]; other site 1087452006155 metal binding triad [ion binding]; metal-binding site 1087452006156 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1087452006157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1087452006158 Zn2+ binding site [ion binding]; other site 1087452006159 Mg2+ binding site [ion binding]; other site 1087452006160 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1087452006161 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 1087452006162 active site 1087452006163 Ap6A binding site [chemical binding]; other site 1087452006164 nudix motif; other site 1087452006165 metal binding site [ion binding]; metal-binding site 1087452006166 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1087452006167 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1087452006168 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1087452006169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1087452006170 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 1087452006171 DNA binding residues [nucleotide binding] 1087452006172 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1087452006173 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1087452006174 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1087452006175 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 1087452006176 catalytic residues [active] 1087452006177 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1087452006178 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1087452006179 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1087452006180 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1087452006181 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 1087452006182 active site 1087452006183 metal binding site [ion binding]; metal-binding site 1087452006184 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1087452006185 ParB-like nuclease domain; Region: ParBc; pfam02195 1087452006186 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1087452006187 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 1087452006188 P-loop; other site 1087452006189 Magnesium ion binding site [ion binding]; other site 1087452006190 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 1087452006191 Magnesium ion binding site [ion binding]; other site 1087452006192 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1087452006193 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1087452006194 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 1087452006195 ribonuclease P; Reviewed; Region: rnpA; PRK03459 1087452006196 Ribosomal protein L34; Region: Ribosomal_L34; cl00370