-- dump date 20140619_052741 -- class Genbank::misc_feature -- table misc_feature_note -- id note 935298000001 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14086 935298000002 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 935298000003 Walker A motif; other site 935298000004 ATP binding site [chemical binding]; other site 935298000005 Walker B motif; other site 935298000006 arginine finger; other site 935298000007 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 935298000008 DnaA box-binding interface [nucleotide binding]; other site 935298000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 935298000010 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 935298000011 putative DNA binding surface [nucleotide binding]; other site 935298000012 dimer interface [polypeptide binding]; other site 935298000013 beta-clamp/clamp loader binding surface; other site 935298000014 beta-clamp/translesion DNA polymerase binding surface; other site 935298000015 recombination protein F; Reviewed; Region: recF; PRK00064 935298000016 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 935298000017 Walker A/P-loop; other site 935298000018 ATP binding site [chemical binding]; other site 935298000019 Q-loop/lid; other site 935298000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298000021 ABC transporter signature motif; other site 935298000022 Walker B; other site 935298000023 D-loop; other site 935298000024 H-loop/switch region; other site 935298000025 hypothetical protein; Provisional; Region: PRK00111 935298000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 935298000027 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 935298000028 ATP binding site [chemical binding]; other site 935298000029 Mg2+ binding site [ion binding]; other site 935298000030 G-X-G motif; other site 935298000031 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 935298000032 anchoring element; other site 935298000033 dimer interface [polypeptide binding]; other site 935298000034 ATP binding site [chemical binding]; other site 935298000035 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 935298000036 active site 935298000037 putative metal-binding site [ion binding]; other site 935298000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 935298000039 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 935298000040 metal binding site [ion binding]; metal-binding site 935298000041 DNA gyrase subunit A; Validated; Region: PRK05560 935298000042 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 935298000043 CAP-like domain; other site 935298000044 active site 935298000045 primary dimer interface [polypeptide binding]; other site 935298000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935298000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935298000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935298000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935298000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935298000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935298000052 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 935298000053 YwiC-like protein; Region: YwiC; pfam14256 935298000054 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 935298000055 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 935298000056 putative ligand binding site [chemical binding]; other site 935298000057 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 935298000058 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 935298000059 TM-ABC transporter signature motif; other site 935298000060 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 935298000061 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935298000062 Walker A/P-loop; other site 935298000063 ATP binding site [chemical binding]; other site 935298000064 Q-loop/lid; other site 935298000065 ABC transporter signature motif; other site 935298000066 Walker B; other site 935298000067 D-loop; other site 935298000068 H-loop/switch region; other site 935298000069 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 935298000070 active site 935298000071 Rhomboid family; Region: Rhomboid; pfam01694 935298000072 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cl17348 935298000073 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 935298000074 Glycerophosphodiester phosphodiesterase-like domain of spider venom sphingomyelinases D, bacterial phospholipase D, and similar proteins; Region: GDPD_like_SMaseD_PLD; cd08576 935298000075 putative active site [active] 935298000076 catalytic site [active] 935298000077 Mg binding site [ion binding]; other site 935298000078 catalytic loop [active] 935298000079 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935298000080 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298000081 Walker A/P-loop; other site 935298000082 ATP binding site [chemical binding]; other site 935298000083 Q-loop/lid; other site 935298000084 ABC transporter signature motif; other site 935298000085 Walker B; other site 935298000086 D-loop; other site 935298000087 H-loop/switch region; other site 935298000088 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 935298000089 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 935298000090 ABC-ATPase subunit interface; other site 935298000091 dimer interface [polypeptide binding]; other site 935298000092 putative PBP binding regions; other site 935298000093 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298000094 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 935298000095 ABC-ATPase subunit interface; other site 935298000096 dimer interface [polypeptide binding]; other site 935298000097 putative PBP binding regions; other site 935298000098 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 935298000099 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 935298000100 siderophore binding site; other site 935298000101 putative septation inhibitor protein; Reviewed; Region: PRK00159 935298000102 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 935298000103 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 935298000104 active site 935298000105 ATP binding site [chemical binding]; other site 935298000106 substrate binding site [chemical binding]; other site 935298000107 activation loop (A-loop); other site 935298000108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 935298000109 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 935298000110 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 935298000111 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 935298000112 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 935298000113 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 935298000114 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 935298000115 active site 935298000116 ATP binding site [chemical binding]; other site 935298000117 substrate binding site [chemical binding]; other site 935298000118 activation loop (A-loop); other site 935298000119 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 935298000120 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935298000121 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 935298000122 Protein phosphatase 2C; Region: PP2C; pfam00481 935298000123 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 935298000124 active site 935298000125 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 935298000126 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 935298000127 phosphopeptide binding site; other site 935298000128 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 935298000129 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 935298000130 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 935298000131 phosphopeptide binding site; other site 935298000132 CAAX protease self-immunity; Region: Abi; pfam02517 935298000133 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 935298000134 Predicted transcriptional regulators [Transcription]; Region: COG1695 935298000135 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 935298000136 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 935298000137 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 935298000138 intersubunit interface [polypeptide binding]; other site 935298000139 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935298000140 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298000141 Walker A/P-loop; other site 935298000142 ATP binding site [chemical binding]; other site 935298000143 Q-loop/lid; other site 935298000144 ABC transporter signature motif; other site 935298000145 Walker B; other site 935298000146 D-loop; other site 935298000147 H-loop/switch region; other site 935298000148 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298000149 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 935298000150 ABC-ATPase subunit interface; other site 935298000151 dimer interface [polypeptide binding]; other site 935298000152 putative PBP binding regions; other site 935298000153 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 935298000154 MgtE intracellular N domain; Region: MgtE_N; smart00924 935298000155 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 935298000156 Divalent cation transporter; Region: MgtE; pfam01769 935298000157 trehalose synthase; Region: treS_nterm; TIGR02456 935298000158 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_2; cd11348 935298000159 active site 935298000160 catalytic site [active] 935298000161 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 935298000162 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 935298000163 putative substrate translocation pore; other site 935298000164 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935298000165 Anti-sigma-K factor rskA; Region: RskA; pfam10099 935298000166 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 935298000167 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935298000168 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 935298000169 DNA binding residues [nucleotide binding] 935298000170 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 935298000171 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 935298000172 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 935298000173 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935298000174 catalytic residues [active] 935298000175 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 935298000176 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 935298000177 dimer interface [polypeptide binding]; other site 935298000178 conserved gate region; other site 935298000179 putative PBP binding loops; other site 935298000180 ABC-ATPase subunit interface; other site 935298000181 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 935298000182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298000183 Walker A/P-loop; other site 935298000184 ATP binding site [chemical binding]; other site 935298000185 Q-loop/lid; other site 935298000186 ABC transporter signature motif; other site 935298000187 Walker B; other site 935298000188 D-loop; other site 935298000189 H-loop/switch region; other site 935298000190 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 935298000191 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 935298000192 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 935298000193 putative metal binding site [ion binding]; other site 935298000194 biotin synthase; Validated; Region: PRK06256 935298000195 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 935298000196 FeS/SAM binding site; other site 935298000197 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 935298000198 MepB protein; Region: MepB; cl01985 935298000199 AMP nucleosidase; Provisional; Region: PRK08292 935298000200 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 935298000201 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 935298000202 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 935298000203 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 935298000204 active site 935298000205 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 935298000206 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 935298000207 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 935298000208 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 935298000209 Lipase (class 2); Region: Lipase_2; pfam01674 935298000210 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 935298000211 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 935298000212 trimer interface [polypeptide binding]; other site 935298000213 putative metal binding site [ion binding]; other site 935298000214 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935298000215 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 935298000216 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 935298000217 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 935298000218 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 935298000219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935298000220 Coenzyme A binding pocket [chemical binding]; other site 935298000221 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 935298000222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 935298000223 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935298000224 MarR family; Region: MarR; pfam01047 935298000225 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 935298000226 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 935298000227 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 935298000228 hypothetical protein; Provisional; Region: PRK10621 935298000229 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 935298000230 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 935298000231 active site 935298000232 phosphorylation site [posttranslational modification] 935298000233 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 935298000234 active site 935298000235 P-loop; other site 935298000236 phosphorylation site [posttranslational modification] 935298000237 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 935298000238 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 935298000239 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 935298000240 ATP binding site [chemical binding]; other site 935298000241 putative Mg++ binding site [ion binding]; other site 935298000242 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 935298000243 nucleotide binding region [chemical binding]; other site 935298000244 ATP-binding site [chemical binding]; other site 935298000245 Helicase associated domain (HA2); Region: HA2; pfam04408 935298000246 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 935298000247 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 935298000248 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 935298000249 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 935298000250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935298000251 NAD(P) binding site [chemical binding]; other site 935298000252 active site 935298000253 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 935298000254 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 935298000255 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935298000256 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 935298000257 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 935298000258 DNA binding site [nucleotide binding] 935298000259 active site 935298000260 Domain of unknown function (DUF222); Region: DUF222; pfam02720 935298000261 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 935298000262 active site 935298000263 glycerol kinase; Provisional; Region: glpK; PRK00047 935298000264 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 935298000265 nucleotide binding site [chemical binding]; other site 935298000266 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 935298000267 amphipathic channel; other site 935298000268 Asn-Pro-Ala signature motifs; other site 935298000269 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 935298000270 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 935298000271 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 935298000272 active site 935298000273 Zn binding site [ion binding]; other site 935298000274 Protease prsW family; Region: PrsW-protease; pfam13367 935298000275 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 935298000276 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 935298000277 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 935298000278 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 935298000279 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 935298000280 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 935298000281 classical (c) SDRs; Region: SDR_c; cd05233 935298000282 NAD(P) binding site [chemical binding]; other site 935298000283 active site 935298000284 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 935298000285 FAD binding domain; Region: FAD_binding_4; pfam01565 935298000286 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 935298000287 Predicted membrane protein [Function unknown]; Region: COG2246 935298000288 GtrA-like protein; Region: GtrA; pfam04138 935298000289 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 935298000290 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 935298000291 active site 935298000292 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 935298000293 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935298000294 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 935298000295 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 935298000296 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 935298000297 ABC-ATPase subunit interface; other site 935298000298 dimer interface [polypeptide binding]; other site 935298000299 putative PBP binding regions; other site 935298000300 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 935298000301 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 935298000302 intersubunit interface [polypeptide binding]; other site 935298000303 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 935298000304 active site 935298000305 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 935298000306 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 935298000307 Walker A/P-loop; other site 935298000308 ATP binding site [chemical binding]; other site 935298000309 Q-loop/lid; other site 935298000310 ABC transporter signature motif; other site 935298000311 Walker B; other site 935298000312 D-loop; other site 935298000313 H-loop/switch region; other site 935298000314 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 935298000315 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 935298000316 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 935298000317 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 935298000318 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 935298000319 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 935298000320 NAD(P) binding site [chemical binding]; other site 935298000321 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 935298000322 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 935298000323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298000324 homodimer interface [polypeptide binding]; other site 935298000325 catalytic residue [active] 935298000326 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 935298000327 transmembrane helices; other site 935298000328 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 935298000329 CAT RNA binding domain; Region: CAT_RBD; smart01061 935298000330 PRD domain; Region: PRD; pfam00874 935298000331 PRD domain; Region: PRD; pfam00874 935298000332 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 935298000333 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935298000334 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 935298000335 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935298000336 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 935298000337 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 935298000338 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935298000339 DNA-binding site [nucleotide binding]; DNA binding site 935298000340 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 935298000341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298000342 homodimer interface [polypeptide binding]; other site 935298000343 catalytic residue [active] 935298000344 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 935298000345 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 935298000346 active site 935298000347 multimer interface [polypeptide binding]; other site 935298000348 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 935298000349 predicted active site [active] 935298000350 catalytic triad [active] 935298000351 prephenate dehydrogenase; Validated; Region: PRK06545 935298000352 prephenate dehydrogenase; Validated; Region: PRK08507 935298000353 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 935298000354 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 935298000355 nucleoside/Zn binding site; other site 935298000356 dimer interface [polypeptide binding]; other site 935298000357 catalytic motif [active] 935298000358 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 935298000359 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 935298000360 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 935298000361 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 935298000362 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 935298000363 active site 935298000364 KMSKS motif; other site 935298000365 fructuronate transporter; Provisional; Region: PRK10034; cl15264 935298000366 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 935298000367 Shikimate kinase; Region: SKI; pfam01202 935298000368 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 935298000369 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 935298000370 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 935298000371 putative NAD(P) binding site [chemical binding]; other site 935298000372 catalytic Zn binding site [ion binding]; other site 935298000373 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 935298000374 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 935298000375 NADP binding site [chemical binding]; other site 935298000376 homodimer interface [polypeptide binding]; other site 935298000377 active site 935298000378 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 935298000379 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 935298000380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298000381 homodimer interface [polypeptide binding]; other site 935298000382 catalytic residue [active] 935298000383 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 935298000384 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 935298000385 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 935298000386 Walker A motif; other site 935298000387 ATP binding site [chemical binding]; other site 935298000388 Walker B motif; other site 935298000389 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 935298000390 arginine finger; other site 935298000391 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 935298000392 hypothetical protein; Validated; Region: PRK00153 935298000393 recombination protein RecR; Reviewed; Region: recR; PRK00076 935298000394 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 935298000395 RecR protein; Region: RecR; pfam02132 935298000396 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 935298000397 putative active site [active] 935298000398 putative metal-binding site [ion binding]; other site 935298000399 tetramer interface [polypeptide binding]; other site 935298000400 putative transporter; Provisional; Region: PRK09821 935298000401 GntP family permease; Region: GntP_permease; pfam02447 935298000402 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 935298000403 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 935298000404 Transcriptional regulators [Transcription]; Region: FadR; COG2186 935298000405 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935298000406 DNA-binding site [nucleotide binding]; DNA binding site 935298000407 FCD domain; Region: FCD; pfam07729 935298000408 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 935298000409 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 935298000410 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 935298000411 catalytic triad [active] 935298000412 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 935298000413 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935298000414 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 935298000415 DNA polymerase III subunit epsilon; Validated; Region: PRK05601 935298000416 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 935298000417 active site 935298000418 catalytic site [active] 935298000419 substrate binding site [chemical binding]; other site 935298000420 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 935298000421 2-isopropylmalate synthase; Validated; Region: PRK03739 935298000422 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 935298000423 active site 935298000424 catalytic residues [active] 935298000425 metal binding site [ion binding]; metal-binding site 935298000426 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 935298000427 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 935298000428 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 935298000429 DNA binding residues [nucleotide binding] 935298000430 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 935298000431 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 935298000432 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 935298000433 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935298000434 putative substrate translocation pore; other site 935298000435 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 935298000436 intersubunit interface [polypeptide binding]; other site 935298000437 active site 935298000438 catalytic residue [active] 935298000439 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 935298000440 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 935298000441 active site 935298000442 substrate binding site [chemical binding]; other site 935298000443 metal binding site [ion binding]; metal-binding site 935298000444 TQXA domain; Region: TQXA_dom; TIGR03934 935298000445 Cna protein B-type domain; Region: Cna_B; pfam05738 935298000446 Cna protein B-type domain; Region: Cna_B; pfam05738 935298000447 Cna protein B-type domain; Region: Cna_B; pfam05738 935298000448 aspartate kinase; Reviewed; Region: PRK06635 935298000449 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 935298000450 putative nucleotide binding site [chemical binding]; other site 935298000451 putative catalytic residues [active] 935298000452 putative Mg ion binding site [ion binding]; other site 935298000453 putative aspartate binding site [chemical binding]; other site 935298000454 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 935298000455 putative allosteric regulatory site; other site 935298000456 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 935298000457 putative allosteric regulatory residue; other site 935298000458 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 935298000459 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 935298000460 RNA polymerase sigma factor; Provisional; Region: PRK12535 935298000461 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935298000462 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 935298000463 DNA binding residues [nucleotide binding] 935298000464 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 935298000465 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 935298000466 heme binding pocket [chemical binding]; other site 935298000467 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 935298000468 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 935298000469 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 935298000470 Walker A/P-loop; other site 935298000471 ATP binding site [chemical binding]; other site 935298000472 Q-loop/lid; other site 935298000473 ABC transporter signature motif; other site 935298000474 Walker B; other site 935298000475 D-loop; other site 935298000476 H-loop/switch region; other site 935298000477 TOBE domain; Region: TOBE_2; pfam08402 935298000478 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 935298000479 dimer interface [polypeptide binding]; other site 935298000480 conserved gate region; other site 935298000481 ABC-ATPase subunit interface; other site 935298000482 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 935298000483 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 935298000484 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 935298000485 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 935298000486 putative substrate translocation pore; other site 935298000487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935298000488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298000489 active site 935298000490 phosphorylation site [posttranslational modification] 935298000491 intermolecular recognition site; other site 935298000492 dimerization interface [polypeptide binding]; other site 935298000493 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 935298000494 DNA binding site [nucleotide binding] 935298000495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935298000496 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 935298000497 dimer interface [polypeptide binding]; other site 935298000498 phosphorylation site [posttranslational modification] 935298000499 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 935298000500 ATP binding site [chemical binding]; other site 935298000501 Mg2+ binding site [ion binding]; other site 935298000502 G-X-G motif; other site 935298000503 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 935298000504 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 935298000505 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12654 935298000506 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 935298000507 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935298000508 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 935298000509 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 935298000510 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935298000511 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 935298000512 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 935298000513 Predicted membrane protein [Function unknown]; Region: COG1511 935298000514 Predicted membrane protein [Function unknown]; Region: COG1511 935298000515 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 935298000516 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 935298000517 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 935298000518 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 935298000519 putative active site [active] 935298000520 putative metal binding site [ion binding]; other site 935298000521 Yqey-like protein; Region: YqeY; pfam09424 935298000522 Transglycosylase; Region: Transgly; pfam00912 935298000523 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 935298000524 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 935298000525 PASTA domain; Region: PASTA; pfam03793 935298000526 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 935298000527 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 935298000528 homotrimer interaction site [polypeptide binding]; other site 935298000529 putative active site [active] 935298000530 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 935298000531 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 935298000532 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 935298000533 ligand binding site [chemical binding]; other site 935298000534 flexible hinge region; other site 935298000535 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 935298000536 putative switch regulator; other site 935298000537 non-specific DNA interactions [nucleotide binding]; other site 935298000538 DNA binding site [nucleotide binding] 935298000539 sequence specific DNA binding site [nucleotide binding]; other site 935298000540 putative cAMP binding site [chemical binding]; other site 935298000541 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 935298000542 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935298000543 minor groove reading motif; other site 935298000544 helix-hairpin-helix signature motif; other site 935298000545 substrate binding pocket [chemical binding]; other site 935298000546 active site 935298000547 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 935298000548 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 935298000549 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935298000550 catalytic residues [active] 935298000551 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 935298000552 putative active site [active] 935298000553 putative CoA binding site [chemical binding]; other site 935298000554 nudix motif; other site 935298000555 metal binding site [ion binding]; metal-binding site 935298000556 Colicin V production protein; Region: Colicin_V; pfam02674 935298000557 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 935298000558 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 935298000559 active site 935298000560 substrate binding sites [chemical binding]; other site 935298000561 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 935298000562 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 935298000563 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 935298000564 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 935298000565 motif II; other site 935298000566 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 935298000567 Type II/IV secretion system protein; Region: T2SE; pfam00437 935298000568 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 935298000569 ATP binding site [chemical binding]; other site 935298000570 Walker A motif; other site 935298000571 hexamer interface [polypeptide binding]; other site 935298000572 Walker B motif; other site 935298000573 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 935298000574 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 935298000575 helicase/secretion neighborhood TadE-like protein; Region: tadE_like_DECH; TIGR03816 935298000576 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 935298000577 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 935298000578 ATP binding site [chemical binding]; other site 935298000579 putative Mg++ binding site [ion binding]; other site 935298000580 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 935298000581 nucleotide binding region [chemical binding]; other site 935298000582 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 935298000583 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 935298000584 DNA-binding site [nucleotide binding]; DNA binding site 935298000585 RNA-binding motif; other site 935298000586 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 935298000587 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 935298000588 active site 935298000589 interdomain interaction site; other site 935298000590 putative metal-binding site [ion binding]; other site 935298000591 nucleotide binding site [chemical binding]; other site 935298000592 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 935298000593 domain I; other site 935298000594 DNA binding groove [nucleotide binding] 935298000595 phosphate binding site [ion binding]; other site 935298000596 domain II; other site 935298000597 domain III; other site 935298000598 nucleotide binding site [chemical binding]; other site 935298000599 catalytic site [active] 935298000600 domain IV; other site 935298000601 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 935298000602 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 935298000603 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 935298000604 Predicted membrane protein [Function unknown]; Region: COG1297 935298000605 putative oligopeptide transporter, OPT family; Region: TIGR00733 935298000606 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 935298000607 dimerization interface [polypeptide binding]; other site 935298000608 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 935298000609 cyclase homology domain; Region: CHD; cd07302 935298000610 nucleotidyl binding site; other site 935298000611 metal binding site [ion binding]; metal-binding site 935298000612 dimer interface [polypeptide binding]; other site 935298000613 DNA polymerase III subunit delta'; Validated; Region: PRK07940 935298000614 DNA polymerase III subunit delta'; Validated; Region: PRK08485 935298000615 acyl-CoA synthetase; Validated; Region: PRK07788 935298000616 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935298000617 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935298000618 acyl-activating enzyme (AAE) consensus motif; other site 935298000619 acyl-activating enzyme (AAE) consensus motif; other site 935298000620 AMP binding site [chemical binding]; other site 935298000621 active site 935298000622 CoA binding site [chemical binding]; other site 935298000623 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 935298000624 active site 935298000625 catalytic triad [active] 935298000626 oxyanion hole [active] 935298000627 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 935298000628 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 935298000629 substrate binding site; other site 935298000630 tetramer interface; other site 935298000631 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 935298000632 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 935298000633 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 935298000634 NADP binding site [chemical binding]; other site 935298000635 active site 935298000636 putative substrate binding site [chemical binding]; other site 935298000637 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 935298000638 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 935298000639 NAD binding site [chemical binding]; other site 935298000640 substrate binding site [chemical binding]; other site 935298000641 homodimer interface [polypeptide binding]; other site 935298000642 active site 935298000643 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 935298000644 Zn binding site [ion binding]; other site 935298000645 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 935298000646 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 935298000647 Putative esterase; Region: Esterase; pfam00756 935298000648 Peptidase family S64; Region: Peptidase_S64; pfam08192 935298000649 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 935298000650 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 935298000651 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935298000652 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935298000653 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935298000654 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 935298000655 non-specific DNA binding site [nucleotide binding]; other site 935298000656 salt bridge; other site 935298000657 sequence-specific DNA binding site [nucleotide binding]; other site 935298000658 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 935298000659 Domain of unknown function (DUF955); Region: DUF955; pfam06114 935298000660 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 935298000661 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 935298000662 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 935298000663 putative Iron-sulfur protein interface [polypeptide binding]; other site 935298000664 proximal heme binding site [chemical binding]; other site 935298000665 distal heme binding site [chemical binding]; other site 935298000666 putative dimer interface [polypeptide binding]; other site 935298000667 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 935298000668 L-aspartate oxidase; Provisional; Region: PRK06175 935298000669 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 935298000670 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 935298000671 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 935298000672 Predicted membrane protein [Function unknown]; Region: COG2733 935298000673 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 935298000674 Class I aldolases; Region: Aldolase_Class_I; cl17187 935298000675 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 935298000676 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 935298000677 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 935298000678 FeS/SAM binding site; other site 935298000679 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 935298000680 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 935298000681 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 935298000682 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 935298000683 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 935298000684 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 935298000685 FAD binding domain; Region: FAD_binding_4; pfam01565 935298000686 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 935298000687 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 935298000688 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 935298000689 acyl-activating enzyme (AAE) consensus motif; other site 935298000690 putative AMP binding site [chemical binding]; other site 935298000691 putative active site [active] 935298000692 putative CoA binding site [chemical binding]; other site 935298000693 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 935298000694 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 935298000695 putative ADP-binding pocket [chemical binding]; other site 935298000696 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 935298000697 catalytic core [active] 935298000698 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 935298000699 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 935298000700 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 935298000701 dimer interface [polypeptide binding]; other site 935298000702 phosphorylation site [posttranslational modification] 935298000703 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 935298000704 ATP binding site [chemical binding]; other site 935298000705 Mg2+ binding site [ion binding]; other site 935298000706 G-X-G motif; other site 935298000707 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935298000708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298000709 active site 935298000710 phosphorylation site [posttranslational modification] 935298000711 intermolecular recognition site; other site 935298000712 dimerization interface [polypeptide binding]; other site 935298000713 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 935298000714 DNA binding site [nucleotide binding] 935298000715 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 935298000716 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 935298000717 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 935298000718 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 935298000719 DNA binding domain, excisionase family; Region: excise; TIGR01764 935298000720 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 935298000721 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 935298000722 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 935298000723 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 935298000724 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 935298000725 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 935298000726 motif II; other site 935298000727 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 935298000728 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 935298000729 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 935298000730 tRNA; other site 935298000731 putative tRNA binding site [nucleotide binding]; other site 935298000732 putative NADP binding site [chemical binding]; other site 935298000733 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 935298000734 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 935298000735 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 935298000736 domain interfaces; other site 935298000737 active site 935298000738 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 935298000739 active site 935298000740 homodimer interface [polypeptide binding]; other site 935298000741 SAM binding site [chemical binding]; other site 935298000742 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 935298000743 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 935298000744 active site 935298000745 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 935298000746 dimer interface [polypeptide binding]; other site 935298000747 active site 935298000748 Schiff base residues; other site 935298000749 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935298000750 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 935298000751 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 935298000752 substrate binding site [chemical binding]; other site 935298000753 active site 935298000754 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 935298000755 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 935298000756 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 935298000757 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 935298000758 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 935298000759 inhibitor-cofactor binding pocket; inhibition site 935298000760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298000761 catalytic residue [active] 935298000762 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 935298000763 catalytic core [active] 935298000764 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 935298000765 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935298000766 catalytic residues [active] 935298000767 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 935298000768 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 935298000769 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 935298000770 ResB-like family; Region: ResB; pfam05140 935298000771 Methyltransferase domain; Region: Methyltransf_31; pfam13847 935298000772 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 935298000773 S-adenosylmethionine binding site [chemical binding]; other site 935298000774 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935298000775 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298000776 Walker A/P-loop; other site 935298000777 ATP binding site [chemical binding]; other site 935298000778 Q-loop/lid; other site 935298000779 ABC transporter signature motif; other site 935298000780 Walker B; other site 935298000781 D-loop; other site 935298000782 H-loop/switch region; other site 935298000783 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 935298000784 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 935298000785 intersubunit interface [polypeptide binding]; other site 935298000786 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 935298000787 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 935298000788 ABC-ATPase subunit interface; other site 935298000789 dimer interface [polypeptide binding]; other site 935298000790 putative PBP binding regions; other site 935298000791 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 935298000792 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 935298000793 UbiA prenyltransferase family; Region: UbiA; pfam01040 935298000794 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 935298000795 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935298000796 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935298000797 acyl-activating enzyme (AAE) consensus motif; other site 935298000798 acyl-activating enzyme (AAE) consensus motif; other site 935298000799 AMP binding site [chemical binding]; other site 935298000800 active site 935298000801 CoA binding site [chemical binding]; other site 935298000802 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 935298000803 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 935298000804 substrate binding site [chemical binding]; other site 935298000805 oxyanion hole (OAH) forming residues; other site 935298000806 trimer interface [polypeptide binding]; other site 935298000807 O-succinylbenzoate synthase; Provisional; Region: PRK02901 935298000808 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 935298000809 active site 935298000810 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 935298000811 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 935298000812 dimer interface [polypeptide binding]; other site 935298000813 tetramer interface [polypeptide binding]; other site 935298000814 PYR/PP interface [polypeptide binding]; other site 935298000815 TPP binding site [chemical binding]; other site 935298000816 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 935298000817 TPP-binding site; other site 935298000818 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 935298000819 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 935298000820 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935298000821 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 935298000822 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 935298000823 S-adenosylmethionine binding site [chemical binding]; other site 935298000824 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 935298000825 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 935298000826 NAD(P) binding site [chemical binding]; other site 935298000827 LDH/MDH dimer interface [polypeptide binding]; other site 935298000828 substrate binding site [chemical binding]; other site 935298000829 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 935298000830 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935298000831 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 935298000832 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 935298000833 substrate binding pocket [chemical binding]; other site 935298000834 chain length determination region; other site 935298000835 substrate-Mg2+ binding site; other site 935298000836 catalytic residues [active] 935298000837 aspartate-rich region 1; other site 935298000838 active site lid residues [active] 935298000839 aspartate-rich region 2; other site 935298000840 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 935298000841 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 935298000842 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 935298000843 putative homodimer interface [polypeptide binding]; other site 935298000844 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 935298000845 heterodimer interface [polypeptide binding]; other site 935298000846 homodimer interface [polypeptide binding]; other site 935298000847 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 935298000848 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 935298000849 23S rRNA interface [nucleotide binding]; other site 935298000850 L7/L12 interface [polypeptide binding]; other site 935298000851 putative thiostrepton binding site; other site 935298000852 L25 interface [polypeptide binding]; other site 935298000853 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 935298000854 mRNA/rRNA interface [nucleotide binding]; other site 935298000855 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 935298000856 trimer interface [polypeptide binding]; other site 935298000857 active site 935298000858 G bulge; other site 935298000859 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 935298000860 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 935298000861 FMN binding site [chemical binding]; other site 935298000862 active site 935298000863 substrate binding site [chemical binding]; other site 935298000864 catalytic residue [active] 935298000865 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 935298000866 23S rRNA interface [nucleotide binding]; other site 935298000867 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 935298000868 50S ribosomal protein L7/L12; Reviewed; Region: rplL; PRK00157 935298000869 L11 interface [polypeptide binding]; other site 935298000870 putative EF-Tu interaction site [polypeptide binding]; other site 935298000871 putative EF-G interaction site [polypeptide binding]; other site 935298000872 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 935298000873 anchored repeat ABC transporter, substrate-binding protein; Region: anch_rpt_subst; TIGR03772 935298000874 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 935298000875 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 935298000876 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 935298000877 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 935298000878 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935298000879 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 935298000880 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 935298000881 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 935298000882 ABC-ATPase subunit interface; other site 935298000883 dimer interface [polypeptide binding]; other site 935298000884 putative PBP binding regions; other site 935298000885 Ethylene insensitive 3; Region: EIN3; cl04813 935298000886 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 935298000887 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 935298000888 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 935298000889 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 935298000890 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 935298000891 RPB1 interaction site [polypeptide binding]; other site 935298000892 RPB10 interaction site [polypeptide binding]; other site 935298000893 RPB11 interaction site [polypeptide binding]; other site 935298000894 RPB3 interaction site [polypeptide binding]; other site 935298000895 RPB12 interaction site [polypeptide binding]; other site 935298000896 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 935298000897 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 935298000898 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 935298000899 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 935298000900 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 935298000901 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 935298000902 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 935298000903 G-loop; other site 935298000904 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 935298000905 DNA binding site [nucleotide binding] 935298000906 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 935298000907 Histidine kinase; Region: HisKA_3; pfam07730 935298000908 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 935298000909 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935298000910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298000911 active site 935298000912 phosphorylation site [posttranslational modification] 935298000913 intermolecular recognition site; other site 935298000914 dimerization interface [polypeptide binding]; other site 935298000915 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 935298000916 DNA binding residues [nucleotide binding] 935298000917 dimerization interface [polypeptide binding]; other site 935298000918 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 935298000919 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 935298000920 TIGR03943 family protein; Region: TIGR03943 935298000921 Predicted permease; Region: DUF318; cl17795 935298000922 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 935298000923 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 935298000924 FeS/SAM binding site; other site 935298000925 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 935298000926 Class III ribonucleotide reductase; Region: RNR_III; cd01675 935298000927 effector binding site; other site 935298000928 active site 935298000929 Zn binding site [ion binding]; other site 935298000930 glycine loop; other site 935298000931 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 935298000932 S17 interaction site [polypeptide binding]; other site 935298000933 S8 interaction site; other site 935298000934 16S rRNA interaction site [nucleotide binding]; other site 935298000935 streptomycin interaction site [chemical binding]; other site 935298000936 23S rRNA interaction site [nucleotide binding]; other site 935298000937 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 935298000938 30S ribosomal protein S7; Validated; Region: PRK05302 935298000939 elongation factor G; Reviewed; Region: PRK00007 935298000940 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 935298000941 G1 box; other site 935298000942 putative GEF interaction site [polypeptide binding]; other site 935298000943 GTP/Mg2+ binding site [chemical binding]; other site 935298000944 Switch I region; other site 935298000945 G2 box; other site 935298000946 G3 box; other site 935298000947 Switch II region; other site 935298000948 G4 box; other site 935298000949 G5 box; other site 935298000950 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 935298000951 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 935298000952 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 935298000953 elongation factor Tu; Reviewed; Region: PRK00049 935298000954 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 935298000955 G1 box; other site 935298000956 GEF interaction site [polypeptide binding]; other site 935298000957 GTP/Mg2+ binding site [chemical binding]; other site 935298000958 Switch I region; other site 935298000959 G2 box; other site 935298000960 G3 box; other site 935298000961 Switch II region; other site 935298000962 G4 box; other site 935298000963 G5 box; other site 935298000964 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 935298000965 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 935298000966 Antibiotic Binding Site [chemical binding]; other site 935298000967 Asp23 family; Region: Asp23; cl00574 935298000968 Asp23 family; Region: Asp23; cl00574 935298000969 Asp23 family; Region: Asp23; pfam03780 935298000970 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 935298000971 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 935298000972 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 935298000973 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 935298000974 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 935298000975 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 935298000976 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 935298000977 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 935298000978 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 935298000979 putative translocon binding site; other site 935298000980 protein-rRNA interface [nucleotide binding]; other site 935298000981 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 935298000982 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 935298000983 G-X-X-G motif; other site 935298000984 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 935298000985 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 935298000986 23S rRNA interface [nucleotide binding]; other site 935298000987 5S rRNA interface [nucleotide binding]; other site 935298000988 putative antibiotic binding site [chemical binding]; other site 935298000989 L25 interface [polypeptide binding]; other site 935298000990 L27 interface [polypeptide binding]; other site 935298000991 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 935298000992 putative translocon interaction site; other site 935298000993 23S rRNA interface [nucleotide binding]; other site 935298000994 signal recognition particle (SRP54) interaction site; other site 935298000995 L23 interface [polypeptide binding]; other site 935298000996 trigger factor interaction site; other site 935298000997 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 935298000998 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 935298000999 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 935298001000 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 935298001001 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298001002 Walker A/P-loop; other site 935298001003 ATP binding site [chemical binding]; other site 935298001004 Q-loop/lid; other site 935298001005 ABC transporter signature motif; other site 935298001006 Walker B; other site 935298001007 D-loop; other site 935298001008 H-loop/switch region; other site 935298001009 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935298001010 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298001011 Walker A/P-loop; other site 935298001012 ATP binding site [chemical binding]; other site 935298001013 Q-loop/lid; other site 935298001014 ABC transporter signature motif; other site 935298001015 Walker B; other site 935298001016 D-loop; other site 935298001017 H-loop/switch region; other site 935298001018 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935298001019 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 935298001020 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 935298001021 dimer interface [polypeptide binding]; other site 935298001022 conserved gate region; other site 935298001023 putative PBP binding loops; other site 935298001024 ABC-ATPase subunit interface; other site 935298001025 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935298001026 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 935298001027 putative PBP binding loops; other site 935298001028 dimer interface [polypeptide binding]; other site 935298001029 ABC-ATPase subunit interface; other site 935298001030 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 935298001031 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 935298001032 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 935298001033 RNA binding site [nucleotide binding]; other site 935298001034 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 935298001035 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 935298001036 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 935298001037 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 935298001038 serine transporter; Region: stp; TIGR00814 935298001039 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 935298001040 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 935298001041 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 935298001042 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 935298001043 active site 935298001044 homotetramer interface [polypeptide binding]; other site 935298001045 homodimer interface [polypeptide binding]; other site 935298001046 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 935298001047 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935298001048 active site 935298001049 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 935298001050 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 935298001051 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 935298001052 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 935298001053 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 935298001054 5S rRNA interface [nucleotide binding]; other site 935298001055 23S rRNA interface [nucleotide binding]; other site 935298001056 L5 interface [polypeptide binding]; other site 935298001057 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 935298001058 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 935298001059 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 935298001060 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 935298001061 23S rRNA binding site [nucleotide binding]; other site 935298001062 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 935298001063 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 935298001064 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 935298001065 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 935298001066 dimer interface [polypeptide binding]; other site 935298001067 conserved gate region; other site 935298001068 putative PBP binding loops; other site 935298001069 ABC-ATPase subunit interface; other site 935298001070 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 935298001071 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 935298001072 dimer interface [polypeptide binding]; other site 935298001073 conserved gate region; other site 935298001074 putative PBP binding loops; other site 935298001075 ABC-ATPase subunit interface; other site 935298001076 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 935298001077 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 935298001078 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 935298001079 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 935298001080 Walker A/P-loop; other site 935298001081 ATP binding site [chemical binding]; other site 935298001082 Q-loop/lid; other site 935298001083 ABC transporter signature motif; other site 935298001084 Walker B; other site 935298001085 D-loop; other site 935298001086 H-loop/switch region; other site 935298001087 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 935298001088 SecY translocase; Region: SecY; pfam00344 935298001089 adenylate kinase; Reviewed; Region: adk; PRK00279 935298001090 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 935298001091 AMP-binding site [chemical binding]; other site 935298001092 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 935298001093 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 935298001094 catalytic site [active] 935298001095 BNR repeat-like domain; Region: BNR_2; pfam13088 935298001096 Asp-box motif; other site 935298001097 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935298001098 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 935298001099 rRNA binding site [nucleotide binding]; other site 935298001100 predicted 30S ribosome binding site; other site 935298001101 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 935298001102 30S ribosomal protein S13; Region: bact_S13; TIGR03631 935298001103 30S ribosomal protein S11; Validated; Region: PRK05309 935298001104 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 935298001105 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 935298001106 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 935298001107 RNA binding surface [nucleotide binding]; other site 935298001108 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 935298001109 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 935298001110 alphaNTD - beta interaction site [polypeptide binding]; other site 935298001111 alphaNTD homodimer interface [polypeptide binding]; other site 935298001112 alphaNTD - beta' interaction site [polypeptide binding]; other site 935298001113 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 935298001114 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 935298001115 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 935298001116 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 935298001117 dimerization interface 3.5A [polypeptide binding]; other site 935298001118 active site 935298001119 Protein of unknown function (DUF690); Region: DUF690; cl04939 935298001120 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 935298001121 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 935298001122 active site 935298001123 catalytic residues [active] 935298001124 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; cl17489 935298001125 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 935298001126 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 935298001127 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 935298001128 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 935298001129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298001130 Walker A/P-loop; other site 935298001131 ATP binding site [chemical binding]; other site 935298001132 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 935298001133 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 935298001134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 935298001135 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 935298001136 23S rRNA interface [nucleotide binding]; other site 935298001137 L3 interface [polypeptide binding]; other site 935298001138 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 935298001139 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 935298001140 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 935298001141 active site 935298001142 substrate binding site [chemical binding]; other site 935298001143 metal binding site [ion binding]; metal-binding site 935298001144 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 935298001145 alanine racemase; Reviewed; Region: alr; PRK00053 935298001146 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 935298001147 active site 935298001148 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935298001149 dimer interface [polypeptide binding]; other site 935298001150 substrate binding site [chemical binding]; other site 935298001151 catalytic residues [active] 935298001152 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 935298001153 Predicted permease [General function prediction only]; Region: COG2985 935298001154 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 935298001155 TrkA-C domain; Region: TrkA_C; pfam02080 935298001156 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 935298001157 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 935298001158 Glycoprotease family; Region: Peptidase_M22; pfam00814 935298001159 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 935298001160 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935298001161 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935298001162 Coenzyme A binding pocket [chemical binding]; other site 935298001163 UGMP family protein; Validated; Region: PRK09604 935298001164 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 935298001165 oligomerisation interface [polypeptide binding]; other site 935298001166 mobile loop; other site 935298001167 roof hairpin; other site 935298001168 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 935298001169 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 935298001170 ring oligomerisation interface [polypeptide binding]; other site 935298001171 ATP/Mg binding site [chemical binding]; other site 935298001172 stacking interactions; other site 935298001173 hinge regions; other site 935298001174 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 935298001175 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935298001176 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 935298001177 DNA binding residues [nucleotide binding] 935298001178 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 935298001179 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 935298001180 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 935298001181 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 935298001182 active site 935298001183 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 935298001184 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 935298001185 phosphate binding site [ion binding]; other site 935298001186 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 935298001187 GMP synthase; Reviewed; Region: guaA; PRK00074 935298001188 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 935298001189 AMP/PPi binding site [chemical binding]; other site 935298001190 candidate oxyanion hole; other site 935298001191 catalytic triad [active] 935298001192 potential glutamine specificity residues [chemical binding]; other site 935298001193 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 935298001194 ATP Binding subdomain [chemical binding]; other site 935298001195 Ligand Binding sites [chemical binding]; other site 935298001196 Dimerization subdomain; other site 935298001197 PspC domain; Region: PspC; cl00864 935298001198 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 935298001199 PspC domain; Region: PspC; pfam04024 935298001200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 935298001201 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 935298001202 ATP binding site [chemical binding]; other site 935298001203 Mg2+ binding site [ion binding]; other site 935298001204 G-X-G motif; other site 935298001205 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935298001206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298001207 active site 935298001208 phosphorylation site [posttranslational modification] 935298001209 intermolecular recognition site; other site 935298001210 dimerization interface [polypeptide binding]; other site 935298001211 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 935298001212 dimerization interface [polypeptide binding]; other site 935298001213 DNA binding residues [nucleotide binding] 935298001214 AMIN domain; Region: AMIN; pfam11741 935298001215 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 935298001216 putative dimer interface [polypeptide binding]; other site 935298001217 putative [2Fe-2S] cluster binding site [ion binding]; other site 935298001218 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 935298001219 dimer interface [polypeptide binding]; other site 935298001220 conserved gate region; other site 935298001221 ABC-ATPase subunit interface; other site 935298001222 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 935298001223 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 935298001224 Walker A/P-loop; other site 935298001225 ATP binding site [chemical binding]; other site 935298001226 Q-loop/lid; other site 935298001227 ABC transporter signature motif; other site 935298001228 Walker B; other site 935298001229 D-loop; other site 935298001230 H-loop/switch region; other site 935298001231 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 935298001232 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 935298001233 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 935298001234 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 935298001235 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 935298001236 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 935298001237 intersubunit interface [polypeptide binding]; other site 935298001238 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 935298001239 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935298001240 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 935298001241 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 935298001242 ABC-ATPase subunit interface; other site 935298001243 dimer interface [polypeptide binding]; other site 935298001244 putative PBP binding regions; other site 935298001245 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 935298001246 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 935298001247 ABC-ATPase subunit interface; other site 935298001248 dimer interface [polypeptide binding]; other site 935298001249 putative PBP binding regions; other site 935298001250 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 935298001251 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 935298001252 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 935298001253 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 935298001254 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 935298001255 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 935298001256 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 935298001257 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 935298001258 homodimer interface [polypeptide binding]; other site 935298001259 NADP binding site [chemical binding]; other site 935298001260 substrate binding site [chemical binding]; other site 935298001261 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 935298001262 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 935298001263 active site 935298001264 Htaa; Region: HtaA; pfam04213 935298001265 Htaa; Region: HtaA; pfam04213 935298001266 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 935298001267 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 935298001268 intersubunit interface [polypeptide binding]; other site 935298001269 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298001270 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 935298001271 ABC-ATPase subunit interface; other site 935298001272 dimer interface [polypeptide binding]; other site 935298001273 putative PBP binding regions; other site 935298001274 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 935298001275 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298001276 Walker A/P-loop; other site 935298001277 ATP binding site [chemical binding]; other site 935298001278 Q-loop/lid; other site 935298001279 ABC transporter signature motif; other site 935298001280 Walker B; other site 935298001281 D-loop; other site 935298001282 H-loop/switch region; other site 935298001283 Htaa; Region: HtaA; pfam04213 935298001284 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 935298001285 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 935298001286 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935298001287 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 935298001288 putative substrate translocation pore; other site 935298001289 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 935298001290 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 935298001291 DNA binding residues [nucleotide binding] 935298001292 dimer interface [polypeptide binding]; other site 935298001293 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 935298001294 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 935298001295 putative catalytic site [active] 935298001296 putative metal binding site [ion binding]; other site 935298001297 putative phosphate binding site [ion binding]; other site 935298001298 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 935298001299 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 935298001300 active site 935298001301 HIGH motif; other site 935298001302 dimer interface [polypeptide binding]; other site 935298001303 KMSKS motif; other site 935298001304 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 935298001305 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 935298001306 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 935298001307 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 935298001308 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298001309 active site 935298001310 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935298001311 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 935298001312 non-specific DNA binding site [nucleotide binding]; other site 935298001313 salt bridge; other site 935298001314 sequence-specific DNA binding site [nucleotide binding]; other site 935298001315 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 935298001316 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 935298001317 active site 935298001318 substrate binding site [chemical binding]; other site 935298001319 metal binding site [ion binding]; metal-binding site 935298001320 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 935298001321 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 935298001322 metal binding site [ion binding]; metal-binding site 935298001323 putative dimer interface [polypeptide binding]; other site 935298001324 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 935298001325 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935298001326 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935298001327 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935298001328 pyruvate carboxylase; Reviewed; Region: PRK12999 935298001329 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935298001330 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935298001331 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 935298001332 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 935298001333 active site 935298001334 catalytic residues [active] 935298001335 metal binding site [ion binding]; metal-binding site 935298001336 homodimer binding site [polypeptide binding]; other site 935298001337 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 935298001338 carboxyltransferase (CT) interaction site; other site 935298001339 biotinylation site [posttranslational modification]; other site 935298001340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935298001341 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 935298001342 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 935298001343 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 935298001344 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935298001345 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 935298001346 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 935298001347 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 935298001348 carboxyltransferase (CT) interaction site; other site 935298001349 biotinylation site [posttranslational modification]; other site 935298001350 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 935298001351 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 935298001352 active site residue [active] 935298001353 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 935298001354 active site residue [active] 935298001355 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 935298001356 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 935298001357 Maf-like protein; Region: Maf; pfam02545 935298001358 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 935298001359 active site 935298001360 dimer interface [polypeptide binding]; other site 935298001361 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 935298001362 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 935298001363 substrate binding site [chemical binding]; other site 935298001364 ATP binding site [chemical binding]; other site 935298001365 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935298001366 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935298001367 DNA binding site [nucleotide binding] 935298001368 domain linker motif; other site 935298001369 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 935298001370 putative ligand binding site [chemical binding]; other site 935298001371 dimerization interface [polypeptide binding]; other site 935298001372 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 935298001373 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 935298001374 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 935298001375 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 935298001376 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 935298001377 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 935298001378 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 935298001379 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 935298001380 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 935298001381 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 935298001382 ATP-grasp domain; Region: ATP-grasp; pfam02222 935298001383 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 935298001384 Uncharacterized conserved protein [Function unknown]; Region: COG1434 935298001385 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 935298001386 putative active site [active] 935298001387 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 935298001388 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 935298001389 dimer interface [polypeptide binding]; other site 935298001390 conserved gate region; other site 935298001391 putative PBP binding loops; other site 935298001392 ABC-ATPase subunit interface; other site 935298001393 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 935298001394 dimer interface [polypeptide binding]; other site 935298001395 conserved gate region; other site 935298001396 putative PBP binding loops; other site 935298001397 ABC-ATPase subunit interface; other site 935298001398 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 935298001399 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 935298001400 TIGR03089 family protein; Region: TIGR03089 935298001401 Transcriptional regulator [Transcription]; Region: LytR; COG1316 935298001402 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 935298001403 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 935298001404 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 935298001405 Probable Catalytic site; other site 935298001406 metal-binding site 935298001407 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 935298001408 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 935298001409 active site 935298001410 Substrate binding site; other site 935298001411 Mg++ binding site; other site 935298001412 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 935298001413 putative trimer interface [polypeptide binding]; other site 935298001414 putative CoA binding site [chemical binding]; other site 935298001415 Transcription factor WhiB; Region: Whib; pfam02467 935298001416 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 935298001417 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 935298001418 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 935298001419 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 935298001420 active site 935298001421 substrate binding site [chemical binding]; other site 935298001422 metal binding site [ion binding]; metal-binding site 935298001423 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 935298001424 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 935298001425 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 935298001426 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 935298001427 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 935298001428 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 935298001429 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 935298001430 homotetramer interface [polypeptide binding]; other site 935298001431 ligand binding site [chemical binding]; other site 935298001432 catalytic site [active] 935298001433 NAD binding site [chemical binding]; other site 935298001434 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 935298001435 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 935298001436 TMP-binding site; other site 935298001437 ATP-binding site [chemical binding]; other site 935298001438 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935298001439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298001440 active site 935298001441 phosphorylation site [posttranslational modification] 935298001442 intermolecular recognition site; other site 935298001443 dimerization interface [polypeptide binding]; other site 935298001444 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 935298001445 DNA binding site [nucleotide binding] 935298001446 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935298001447 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 935298001448 dimerization interface [polypeptide binding]; other site 935298001449 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 935298001450 dimer interface [polypeptide binding]; other site 935298001451 phosphorylation site [posttranslational modification] 935298001452 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 935298001453 ATP binding site [chemical binding]; other site 935298001454 Mg2+ binding site [ion binding]; other site 935298001455 G-X-G motif; other site 935298001456 lipoprotein LpqB; Provisional; Region: PRK13616 935298001457 Sporulation and spore germination; Region: Germane; pfam10646 935298001458 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 935298001459 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298001460 active site 935298001461 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 935298001462 30S subunit binding site; other site 935298001463 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 935298001464 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 935298001465 ATP binding site [chemical binding]; other site 935298001466 putative Mg++ binding site [ion binding]; other site 935298001467 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 935298001468 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 935298001469 nucleotide binding region [chemical binding]; other site 935298001470 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 935298001471 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 935298001472 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 935298001473 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 935298001474 putative di-iron ligands [ion binding]; other site 935298001475 Predicted GTPases [General function prediction only]; Region: COG1162 935298001476 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 935298001477 GTPase/Zn-binding domain interface [polypeptide binding]; other site 935298001478 GTP/Mg2+ binding site [chemical binding]; other site 935298001479 G4 box; other site 935298001480 G5 box; other site 935298001481 G1 box; other site 935298001482 Switch I region; other site 935298001483 G2 box; other site 935298001484 G3 box; other site 935298001485 Switch II region; other site 935298001486 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 935298001487 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 935298001488 hinge; other site 935298001489 active site 935298001490 Uncharacterized conserved protein [Function unknown]; Region: COG2135 935298001491 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 935298001492 putative deacylase active site [active] 935298001493 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 935298001494 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935298001495 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 935298001496 DNA binding residues [nucleotide binding] 935298001497 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 935298001498 Transcription factor WhiB; Region: Whib; pfam02467 935298001499 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 935298001500 active site 935298001501 catalytic triad [active] 935298001502 oxyanion hole [active] 935298001503 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 935298001504 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 935298001505 DEAD-like helicases superfamily; Region: DEXDc; smart00487 935298001506 ATP binding site [chemical binding]; other site 935298001507 Mg++ binding site [ion binding]; other site 935298001508 motif III; other site 935298001509 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 935298001510 nucleotide binding region [chemical binding]; other site 935298001511 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 935298001512 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 935298001513 TIGR02569 family protein; Region: TIGR02569_actnb 935298001514 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 935298001515 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 935298001516 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 935298001517 Part of AAA domain; Region: AAA_19; pfam13245 935298001518 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 935298001519 Ion channel; Region: Ion_trans_2; pfam07885 935298001520 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 935298001521 TrkA-N domain; Region: TrkA_N; pfam02254 935298001522 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 935298001523 putative NADH binding site [chemical binding]; other site 935298001524 putative active site [active] 935298001525 nudix motif; other site 935298001526 putative metal binding site [ion binding]; other site 935298001527 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 935298001528 Part of AAA domain; Region: AAA_19; pfam13245 935298001529 Family description; Region: UvrD_C_2; pfam13538 935298001530 HRDC domain; Region: HRDC; pfam00570 935298001531 Protein of unknown function DUF45; Region: DUF45; cl00636 935298001532 putative hydrolase; Region: TIGR03624 935298001533 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 935298001534 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 935298001535 hypothetical protein; Validated; Region: PRK00068 935298001536 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 935298001537 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 935298001538 sequence-specific DNA binding site [nucleotide binding]; other site 935298001539 salt bridge; other site 935298001540 Abi-like protein; Region: Abi_2; pfam07751 935298001541 Predicted helicase [General function prediction only]; Region: COG4889 935298001542 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 935298001543 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 935298001544 ATP binding site [chemical binding]; other site 935298001545 putative Mg++ binding site [ion binding]; other site 935298001546 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 935298001547 ATP-binding site [chemical binding]; other site 935298001548 Methyltransferase domain; Region: Methyltransf_26; pfam13659 935298001549 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 935298001550 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 935298001551 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 935298001552 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 935298001553 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 935298001554 Predicted membrane protein [Function unknown]; Region: COG2311 935298001555 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 935298001556 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935298001557 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 935298001558 acyl-activating enzyme (AAE) consensus motif; other site 935298001559 AMP binding site [chemical binding]; other site 935298001560 active site 935298001561 CoA binding site [chemical binding]; other site 935298001562 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935298001563 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 935298001564 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 935298001565 putative trimer interface [polypeptide binding]; other site 935298001566 putative CoA binding site [chemical binding]; other site 935298001567 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 935298001568 putative trimer interface [polypeptide binding]; other site 935298001569 putative CoA binding site [chemical binding]; other site 935298001570 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 935298001571 oxaloacetate decarboxylase; Provisional; Region: PRK12330 935298001572 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 935298001573 active site 935298001574 catalytic residues [active] 935298001575 metal binding site [ion binding]; metal-binding site 935298001576 homodimer binding site [polypeptide binding]; other site 935298001577 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 935298001578 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 935298001579 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 935298001580 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 935298001581 carboxyltransferase (CT) interaction site; other site 935298001582 biotinylation site [posttranslational modification]; other site 935298001583 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 935298001584 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 935298001585 active site 935298001586 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 935298001587 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 935298001588 active site 935298001589 peptide chain release factor 2; Validated; Region: prfB; PRK00578 935298001590 This domain is found in peptide chain release factors; Region: PCRF; smart00937 935298001591 RF-1 domain; Region: RF-1; pfam00472 935298001592 AAA domain; Region: AAA_17; pfam13207 935298001593 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 935298001594 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 935298001595 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 935298001596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298001597 Walker A/P-loop; other site 935298001598 ATP binding site [chemical binding]; other site 935298001599 Q-loop/lid; other site 935298001600 ABC transporter signature motif; other site 935298001601 Walker B; other site 935298001602 D-loop; other site 935298001603 H-loop/switch region; other site 935298001604 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 935298001605 FtsX-like permease family; Region: FtsX; pfam02687 935298001606 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 935298001607 SmpB-tmRNA interface; other site 935298001608 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 935298001609 active site clefts [active] 935298001610 zinc binding site [ion binding]; other site 935298001611 dimer interface [polypeptide binding]; other site 935298001612 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 935298001613 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 935298001614 intersubunit interface [polypeptide binding]; other site 935298001615 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298001616 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 935298001617 ABC-ATPase subunit interface; other site 935298001618 dimer interface [polypeptide binding]; other site 935298001619 putative PBP binding regions; other site 935298001620 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 935298001621 ABC-ATPase subunit interface; other site 935298001622 dimer interface [polypeptide binding]; other site 935298001623 putative PBP binding regions; other site 935298001624 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 935298001625 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298001626 Walker A/P-loop; other site 935298001627 ATP binding site [chemical binding]; other site 935298001628 Q-loop/lid; other site 935298001629 ABC transporter signature motif; other site 935298001630 Walker B; other site 935298001631 D-loop; other site 935298001632 H-loop/switch region; other site 935298001633 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 935298001634 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 935298001635 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 935298001636 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 935298001637 ATP binding site [chemical binding]; other site 935298001638 putative Mg++ binding site [ion binding]; other site 935298001639 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 935298001640 nucleotide binding region [chemical binding]; other site 935298001641 ATP-binding site [chemical binding]; other site 935298001642 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 935298001643 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 935298001644 Protein of unknown function (DUF3235); Region: DUF3235; pfam11574 935298001645 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 935298001646 DNA-binding site [nucleotide binding]; DNA binding site 935298001647 RNA-binding motif; other site 935298001648 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 935298001649 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 935298001650 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 935298001651 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 935298001652 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 935298001653 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935298001654 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 935298001655 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 935298001656 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935298001657 catalytic residue [active] 935298001658 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 935298001659 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 935298001660 dimer interface [polypeptide binding]; other site 935298001661 active site 935298001662 citrylCoA binding site [chemical binding]; other site 935298001663 NADH binding [chemical binding]; other site 935298001664 cationic pore residues; other site 935298001665 oxalacetate/citrate binding site [chemical binding]; other site 935298001666 coenzyme A binding site [chemical binding]; other site 935298001667 catalytic triad [active] 935298001668 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935298001669 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 935298001670 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 935298001671 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 935298001672 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 935298001673 E-class dimer interface [polypeptide binding]; other site 935298001674 P-class dimer interface [polypeptide binding]; other site 935298001675 active site 935298001676 Cu2+ binding site [ion binding]; other site 935298001677 Zn2+ binding site [ion binding]; other site 935298001678 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 935298001679 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 935298001680 active site 935298001681 catalytic tetrad [active] 935298001682 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 935298001683 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 935298001684 substrate binding site [chemical binding]; other site 935298001685 oxyanion hole (OAH) forming residues; other site 935298001686 trimer interface [polypeptide binding]; other site 935298001687 Protein of unknown function, DUF485; Region: DUF485; pfam04341 935298001688 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 935298001689 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 935298001690 Na binding site [ion binding]; other site 935298001691 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 935298001692 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 935298001693 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 935298001694 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 935298001695 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 935298001696 multidrug efflux protein NorA; Provisional; Region: PRK00187 935298001697 cation binding site [ion binding]; other site 935298001698 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 935298001699 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 935298001700 dimer interface [polypeptide binding]; other site 935298001701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298001702 catalytic residue [active] 935298001703 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 935298001704 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935298001705 catalytic residue [active] 935298001706 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 935298001707 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 935298001708 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 935298001709 substrate binding pocket [chemical binding]; other site 935298001710 active site 935298001711 iron coordination sites [ion binding]; other site 935298001712 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 935298001713 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 935298001714 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935298001715 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 935298001716 dimer interface [polypeptide binding]; other site 935298001717 conserved gate region; other site 935298001718 putative PBP binding loops; other site 935298001719 ABC-ATPase subunit interface; other site 935298001720 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 935298001721 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 935298001722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298001723 Walker A/P-loop; other site 935298001724 ATP binding site [chemical binding]; other site 935298001725 Q-loop/lid; other site 935298001726 ABC transporter signature motif; other site 935298001727 Walker B; other site 935298001728 D-loop; other site 935298001729 H-loop/switch region; other site 935298001730 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298001731 Walker A/P-loop; other site 935298001732 ATP binding site [chemical binding]; other site 935298001733 Q-loop/lid; other site 935298001734 ABC transporter signature motif; other site 935298001735 Walker B; other site 935298001736 D-loop; other site 935298001737 H-loop/switch region; other site 935298001738 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 935298001739 active site 935298001740 SAM binding site [chemical binding]; other site 935298001741 homodimer interface [polypeptide binding]; other site 935298001742 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 935298001743 catalytic residues [active] 935298001744 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 935298001745 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 935298001746 folate binding site [chemical binding]; other site 935298001747 NADP+ binding site [chemical binding]; other site 935298001748 thymidylate synthase; Reviewed; Region: thyA; PRK01827 935298001749 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 935298001750 dimerization interface [polypeptide binding]; other site 935298001751 active site 935298001752 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 935298001753 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 935298001754 active site 935298001755 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 935298001756 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 935298001757 ATP binding site [chemical binding]; other site 935298001758 putative Mg++ binding site [ion binding]; other site 935298001759 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 935298001760 nucleotide binding region [chemical binding]; other site 935298001761 ATP-binding site [chemical binding]; other site 935298001762 DEAD/H associated; Region: DEAD_assoc; pfam08494 935298001763 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 935298001764 active site 935298001765 SUMO-1 interface [polypeptide binding]; other site 935298001766 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 935298001767 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 935298001768 putative DNA binding site [nucleotide binding]; other site 935298001769 catalytic residue [active] 935298001770 putative H2TH interface [polypeptide binding]; other site 935298001771 putative catalytic residues [active] 935298001772 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 935298001773 hypothetical protein; Provisional; Region: PRK11770 935298001774 Domain of unknown function (DUF307); Region: DUF307; pfam03733 935298001775 Domain of unknown function (DUF307); Region: DUF307; pfam03733 935298001776 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 935298001777 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 935298001778 active site 935298001779 dimer interface [polypeptide binding]; other site 935298001780 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 935298001781 dimer interface [polypeptide binding]; other site 935298001782 active site 935298001783 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 935298001784 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 935298001785 tetramerization interface [polypeptide binding]; other site 935298001786 NAD(P) binding site [chemical binding]; other site 935298001787 catalytic residues [active] 935298001788 hypothetical protein; Provisional; Region: PRK07857 935298001789 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 935298001790 Part of AAA domain; Region: AAA_19; pfam13245 935298001791 Family description; Region: UvrD_C_2; pfam13538 935298001792 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 935298001793 Peptidase family M23; Region: Peptidase_M23; pfam01551 935298001794 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 935298001795 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 935298001796 active site 935298001797 substrate binding site [chemical binding]; other site 935298001798 cosubstrate binding site; other site 935298001799 catalytic site [active] 935298001800 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 935298001801 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 935298001802 purine monophosphate binding site [chemical binding]; other site 935298001803 dimer interface [polypeptide binding]; other site 935298001804 putative catalytic residues [active] 935298001805 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 935298001806 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935298001807 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935298001808 Walker A/P-loop; other site 935298001809 ATP binding site [chemical binding]; other site 935298001810 Q-loop/lid; other site 935298001811 ABC transporter signature motif; other site 935298001812 Walker B; other site 935298001813 D-loop; other site 935298001814 H-loop/switch region; other site 935298001815 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 935298001816 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 935298001817 substrate binding pocket [chemical binding]; other site 935298001818 membrane-bound complex binding site; other site 935298001819 hinge residues; other site 935298001820 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 935298001821 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 935298001822 dimer interface [polypeptide binding]; other site 935298001823 conserved gate region; other site 935298001824 putative PBP binding loops; other site 935298001825 ABC-ATPase subunit interface; other site 935298001826 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 935298001827 dimer interface [polypeptide binding]; other site 935298001828 conserved gate region; other site 935298001829 putative PBP binding loops; other site 935298001830 ABC-ATPase subunit interface; other site 935298001831 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 935298001832 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935298001833 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298001834 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 935298001835 30S ribosomal protein S18; Provisional; Region: PRK13401 935298001836 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 935298001837 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 935298001838 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 935298001839 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 935298001840 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 935298001841 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935298001842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298001843 active site 935298001844 phosphorylation site [posttranslational modification] 935298001845 intermolecular recognition site; other site 935298001846 dimerization interface [polypeptide binding]; other site 935298001847 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 935298001848 DNA binding site [nucleotide binding] 935298001849 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935298001850 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 935298001851 dimerization interface [polypeptide binding]; other site 935298001852 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 935298001853 dimer interface [polypeptide binding]; other site 935298001854 phosphorylation site [posttranslational modification] 935298001855 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 935298001856 ATP binding site [chemical binding]; other site 935298001857 Mg2+ binding site [ion binding]; other site 935298001858 G-X-G motif; other site 935298001859 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 935298001860 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 935298001861 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 935298001862 protein binding site [polypeptide binding]; other site 935298001863 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 935298001864 MPT binding site; other site 935298001865 trimer interface [polypeptide binding]; other site 935298001866 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 935298001867 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 935298001868 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 935298001869 UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: GalU; COG1210 935298001870 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 935298001871 active site 935298001872 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 935298001873 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 935298001874 dimer interface [polypeptide binding]; other site 935298001875 putative functional site; other site 935298001876 putative MPT binding site; other site 935298001877 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 935298001878 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935298001879 Coenzyme A binding pocket [chemical binding]; other site 935298001880 Predicted membrane protein [Function unknown]; Region: COG2259 935298001881 Predicted integral membrane protein [Function unknown]; Region: COG5660 935298001882 Putative zinc-finger; Region: zf-HC2; pfam13490 935298001883 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 935298001884 BCCT family transporter; Region: BCCT; pfam02028 935298001885 Uncharacterized membrane protein [Function unknown]; Region: COG3949 935298001886 Predicted methyltransferases [General function prediction only]; Region: COG0313 935298001887 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 935298001888 putative SAM binding site [chemical binding]; other site 935298001889 putative homodimer interface [polypeptide binding]; other site 935298001890 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 935298001891 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 935298001892 active site 935298001893 HIGH motif; other site 935298001894 KMSKS motif; other site 935298001895 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 935298001896 tRNA binding surface [nucleotide binding]; other site 935298001897 anticodon binding site; other site 935298001898 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 935298001899 active site 935298001900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 935298001901 Domain of unknown function (DUF348); Region: DUF348; pfam03990 935298001902 Domain of unknown function (DUF348); Region: DUF348; pfam03990 935298001903 G5 domain; Region: G5; pfam07501 935298001904 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 935298001905 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 935298001906 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 935298001907 S-adenosylmethionine binding site [chemical binding]; other site 935298001908 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 935298001909 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 935298001910 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935298001911 ABC transporter; Region: ABC_tran_2; pfam12848 935298001912 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935298001913 Uncharacterized conserved protein [Function unknown]; Region: COG1359 935298001914 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 935298001915 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 935298001916 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 935298001917 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 935298001918 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935298001919 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 935298001920 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 935298001921 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 935298001922 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 935298001923 G1 box; other site 935298001924 putative GEF interaction site [polypeptide binding]; other site 935298001925 GTP/Mg2+ binding site [chemical binding]; other site 935298001926 Switch I region; other site 935298001927 G2 box; other site 935298001928 G3 box; other site 935298001929 Switch II region; other site 935298001930 G4 box; other site 935298001931 G5 box; other site 935298001932 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 935298001933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935298001934 light-dependent protochlorophyllide reductase; Region: LPOR; TIGR01289 935298001935 NAD(P) binding site [chemical binding]; other site 935298001936 active site 935298001937 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 935298001938 putative active site [active] 935298001939 catalytic residue [active] 935298001940 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 935298001941 FMN binding site [chemical binding]; other site 935298001942 substrate binding site [chemical binding]; other site 935298001943 putative catalytic residue [active] 935298001944 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 935298001945 putative active site [active] 935298001946 catalytic residue [active] 935298001947 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 935298001948 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 935298001949 5S rRNA interface [nucleotide binding]; other site 935298001950 CTC domain interface [polypeptide binding]; other site 935298001951 L16 interface [polypeptide binding]; other site 935298001952 pullulanase, type I; Region: pulA_typeI; TIGR02104 935298001953 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 935298001954 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 935298001955 Ca binding site [ion binding]; other site 935298001956 active site 935298001957 catalytic site [active] 935298001958 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 935298001959 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 935298001960 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298001961 active site 935298001962 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 935298001963 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 935298001964 Substrate binding site; other site 935298001965 Mg++ binding site; other site 935298001966 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 935298001967 active site 935298001968 substrate binding site [chemical binding]; other site 935298001969 CoA binding site [chemical binding]; other site 935298001970 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 935298001971 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 935298001972 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 935298001973 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 935298001974 gating phenylalanine in ion channel; other site 935298001975 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935298001976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298001977 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 935298001978 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 935298001979 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 935298001980 ATP binding site [chemical binding]; other site 935298001981 putative Mg++ binding site [ion binding]; other site 935298001982 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 935298001983 nucleotide binding region [chemical binding]; other site 935298001984 ATP-binding site [chemical binding]; other site 935298001985 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 935298001986 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 935298001987 Spore germination protein; Region: Spore_permease; cl17796 935298001988 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 935298001989 homodimer interface [polypeptide binding]; other site 935298001990 metal binding site [ion binding]; metal-binding site 935298001991 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 935298001992 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935298001993 enolase; Provisional; Region: eno; PRK00077 935298001994 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 935298001995 dimer interface [polypeptide binding]; other site 935298001996 metal binding site [ion binding]; metal-binding site 935298001997 substrate binding pocket [chemical binding]; other site 935298001998 Septum formation initiator; Region: DivIC; pfam04977 935298001999 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 935298002000 Uncharacterized conserved protein [Function unknown]; Region: COG1507 935298002001 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 935298002002 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 935298002003 Helix-turn-helix domain; Region: HTH_18; pfam12833 935298002004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935298002005 Bax inhibitor 1 like; Region: BaxI_1; cl17691 935298002006 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 935298002007 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 935298002008 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 935298002009 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 935298002010 mycothiol conjugate amidase Mca; Region: mycothiol_Mca; TIGR03446 935298002011 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 935298002012 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 935298002013 catalytic residue [active] 935298002014 putative FPP diphosphate binding site; other site 935298002015 putative FPP binding hydrophobic cleft; other site 935298002016 dimer interface [polypeptide binding]; other site 935298002017 putative IPP diphosphate binding site; other site 935298002018 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 935298002019 pantothenate kinase; Provisional; Region: PRK05439 935298002020 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 935298002021 ATP-binding site [chemical binding]; other site 935298002022 CoA-binding site [chemical binding]; other site 935298002023 Mg2+-binding site [ion binding]; other site 935298002024 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 935298002025 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 935298002026 dimer interface [polypeptide binding]; other site 935298002027 active site 935298002028 glycine-pyridoxal phosphate binding site [chemical binding]; other site 935298002029 folate binding site [chemical binding]; other site 935298002030 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935298002031 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 935298002032 putative substrate translocation pore; other site 935298002033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935298002034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298002035 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 935298002036 dimerization interface [polypeptide binding]; other site 935298002037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935298002038 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 935298002039 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 935298002040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935298002041 Coenzyme A binding pocket [chemical binding]; other site 935298002042 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 935298002043 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 935298002044 putative substrate translocation pore; other site 935298002045 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 935298002046 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298002047 fumarate hydratase; Reviewed; Region: fumC; PRK00485 935298002048 Class II fumarases; Region: Fumarase_classII; cd01362 935298002049 active site 935298002050 tetramer interface [polypeptide binding]; other site 935298002051 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 935298002052 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 935298002053 putative active site [active] 935298002054 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 935298002055 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 935298002056 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 935298002057 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 935298002058 generic binding surface II; other site 935298002059 generic binding surface I; other site 935298002060 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 935298002061 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 935298002062 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 935298002063 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 935298002064 Domain of unknown function DUF20; Region: UPF0118; pfam01594 935298002065 GTP-binding protein YchF; Reviewed; Region: PRK09601 935298002066 YchF GTPase; Region: YchF; cd01900 935298002067 G1 box; other site 935298002068 GTP/Mg2+ binding site [chemical binding]; other site 935298002069 Switch I region; other site 935298002070 G2 box; other site 935298002071 Switch II region; other site 935298002072 G3 box; other site 935298002073 G4 box; other site 935298002074 G5 box; other site 935298002075 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 935298002076 Protein of unknown function, DUF488; Region: DUF488; pfam04343 935298002077 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 935298002078 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 935298002079 PhnA protein; Region: PhnA; pfam03831 935298002080 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 935298002081 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935298002082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298002083 Walker A/P-loop; other site 935298002084 ATP binding site [chemical binding]; other site 935298002085 Q-loop/lid; other site 935298002086 ABC transporter signature motif; other site 935298002087 Walker B; other site 935298002088 D-loop; other site 935298002089 H-loop/switch region; other site 935298002090 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 935298002091 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935298002092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298002093 Walker A/P-loop; other site 935298002094 ATP binding site [chemical binding]; other site 935298002095 Q-loop/lid; other site 935298002096 ABC transporter signature motif; other site 935298002097 Walker B; other site 935298002098 D-loop; other site 935298002099 H-loop/switch region; other site 935298002100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 935298002101 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 935298002102 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 935298002103 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 935298002104 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 935298002105 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 935298002106 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 935298002107 Walker A/P-loop; other site 935298002108 ATP binding site [chemical binding]; other site 935298002109 Q-loop/lid; other site 935298002110 ABC transporter signature motif; other site 935298002111 Walker B; other site 935298002112 D-loop; other site 935298002113 H-loop/switch region; other site 935298002114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298002115 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 935298002116 Walker A/P-loop; other site 935298002117 ATP binding site [chemical binding]; other site 935298002118 Q-loop/lid; other site 935298002119 ABC transporter signature motif; other site 935298002120 Walker B; other site 935298002121 D-loop; other site 935298002122 H-loop/switch region; other site 935298002123 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 935298002124 hypothetical protein; Provisional; Region: PRK06547 935298002125 Predicted kinase [General function prediction only]; Region: COG0645 935298002126 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 935298002127 nudix motif; other site 935298002128 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 935298002129 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 935298002130 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935298002131 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 935298002132 dimer interface [polypeptide binding]; other site 935298002133 conserved gate region; other site 935298002134 ABC-ATPase subunit interface; other site 935298002135 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 935298002136 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 935298002137 dimer interface [polypeptide binding]; other site 935298002138 conserved gate region; other site 935298002139 putative PBP binding loops; other site 935298002140 ABC-ATPase subunit interface; other site 935298002141 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 935298002142 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298002143 Walker A/P-loop; other site 935298002144 ATP binding site [chemical binding]; other site 935298002145 Q-loop/lid; other site 935298002146 ABC transporter signature motif; other site 935298002147 Walker B; other site 935298002148 D-loop; other site 935298002149 H-loop/switch region; other site 935298002150 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935298002151 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298002152 Walker A/P-loop; other site 935298002153 ATP binding site [chemical binding]; other site 935298002154 Q-loop/lid; other site 935298002155 ABC transporter signature motif; other site 935298002156 Walker B; other site 935298002157 D-loop; other site 935298002158 H-loop/switch region; other site 935298002159 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935298002160 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 935298002161 cleavage site 935298002162 active site 935298002163 substrate binding sites [chemical binding]; other site 935298002164 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 935298002165 ArsC family; Region: ArsC; pfam03960 935298002166 catalytic residues [active] 935298002167 Protein of unknown function (DUF402); Region: DUF402; cl00979 935298002168 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 935298002169 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 935298002170 G1 box; other site 935298002171 GTP/Mg2+ binding site [chemical binding]; other site 935298002172 G2 box; other site 935298002173 Switch I region; other site 935298002174 G3 box; other site 935298002175 Switch II region; other site 935298002176 G4 box; other site 935298002177 G5 box; other site 935298002178 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 935298002179 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 935298002180 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 935298002181 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 935298002182 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 935298002183 Ferredoxin [Energy production and conversion]; Region: COG1146 935298002184 4Fe-4S binding domain; Region: Fer4; pfam00037 935298002185 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 935298002186 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 935298002187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298002188 homodimer interface [polypeptide binding]; other site 935298002189 catalytic residue [active] 935298002190 Predicted membrane protein [Function unknown]; Region: COG2246 935298002191 GtrA-like protein; Region: GtrA; pfam04138 935298002192 Domain of unknown function (DUF222); Region: DUF222; pfam02720 935298002193 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 935298002194 active site 935298002195 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 935298002196 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 935298002197 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 935298002198 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 935298002199 putative trimer interface [polypeptide binding]; other site 935298002200 putative CoA binding site [chemical binding]; other site 935298002201 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 935298002202 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 935298002203 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 935298002204 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 935298002205 putative trimer interface [polypeptide binding]; other site 935298002206 putative CoA binding site [chemical binding]; other site 935298002207 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 935298002208 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 935298002209 metal binding site [ion binding]; metal-binding site 935298002210 putative dimer interface [polypeptide binding]; other site 935298002211 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 935298002212 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 935298002213 dihydropteroate synthase; Region: DHPS; TIGR01496 935298002214 substrate binding pocket [chemical binding]; other site 935298002215 dimer interface [polypeptide binding]; other site 935298002216 inhibitor binding site; inhibition site 935298002217 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 935298002218 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 935298002219 Ligand binding site; other site 935298002220 Putative Catalytic site; other site 935298002221 DXD motif; other site 935298002222 DivIVA domain; Region: DivI1A_domain; TIGR03544 935298002223 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 935298002224 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 935298002225 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 935298002226 S-adenosylmethionine binding site [chemical binding]; other site 935298002227 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 935298002228 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 935298002229 active site 935298002230 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 935298002231 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 935298002232 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 935298002233 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 935298002234 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 935298002235 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 935298002236 ligand binding site; other site 935298002237 oligomer interface; other site 935298002238 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 935298002239 dimer interface [polypeptide binding]; other site 935298002240 N-terminal domain interface [polypeptide binding]; other site 935298002241 sulfate 1 binding site; other site 935298002242 Methyltransferase domain; Region: Methyltransf_24; pfam13578 935298002243 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 935298002244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935298002245 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 935298002246 DNA binding residues [nucleotide binding] 935298002247 sec-independent translocase; Provisional; Region: tatB; PRK00182 935298002248 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 935298002249 Domain of unknown function DUF59; Region: DUF59; pfam01883 935298002250 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 935298002251 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 935298002252 Predicted membrane protein [Function unknown]; Region: COG4420 935298002253 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 935298002254 MgtE intracellular N domain; Region: MgtE_N; smart00924 935298002255 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 935298002256 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 935298002257 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 935298002258 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 935298002259 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 935298002260 TPP-binding site [chemical binding]; other site 935298002261 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 935298002262 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 935298002263 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 935298002264 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 935298002265 shikimate binding site; other site 935298002266 NAD(P) binding site [chemical binding]; other site 935298002267 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 935298002268 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 935298002269 substrate binding pocket [chemical binding]; other site 935298002270 catalytic triad [active] 935298002271 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 935298002272 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 935298002273 active site 935298002274 catalytic residues [active] 935298002275 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 935298002276 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u2; cd11478 935298002277 Na binding site [ion binding]; other site 935298002278 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 935298002279 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 935298002280 nucleotide binding site/active site [active] 935298002281 HIT family signature motif; other site 935298002282 catalytic residue [active] 935298002283 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 935298002284 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 935298002285 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 935298002286 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 935298002287 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 935298002288 ATP binding site [chemical binding]; other site 935298002289 Mg++ binding site [ion binding]; other site 935298002290 motif III; other site 935298002291 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 935298002292 nucleotide binding region [chemical binding]; other site 935298002293 ATP-binding site [chemical binding]; other site 935298002294 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 935298002295 putative RNA binding site [nucleotide binding]; other site 935298002296 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 935298002297 dimer interface [polypeptide binding]; other site 935298002298 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935298002299 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 935298002300 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 935298002301 Na binding site [ion binding]; other site 935298002302 SNF2 Helicase protein; Region: DUF3670; pfam12419 935298002303 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 935298002304 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 935298002305 ATP binding site [chemical binding]; other site 935298002306 putative Mg++ binding site [ion binding]; other site 935298002307 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 935298002308 nucleotide binding region [chemical binding]; other site 935298002309 ATP-binding site [chemical binding]; other site 935298002310 Uncharacterized conserved protein [Function unknown]; Region: COG4279 935298002311 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 935298002312 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 935298002313 active site 935298002314 metal binding site [ion binding]; metal-binding site 935298002315 DNA binding site [nucleotide binding] 935298002316 AAA domain; Region: AAA_23; pfam13476 935298002317 Uncharacterized conserved protein [Function unknown]; Region: COG2353 935298002318 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935298002319 MarR family; Region: MarR_2; pfam12802 935298002320 PspC domain; Region: PspC; pfam04024 935298002321 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 935298002322 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 935298002323 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 935298002324 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 935298002325 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 935298002326 Cysteine-rich domain; Region: CCG; pfam02754 935298002327 Cysteine-rich domain; Region: CCG; pfam02754 935298002328 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 935298002329 L-lactate permease; Region: Lactate_perm; cl00701 935298002330 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 935298002331 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 935298002332 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 935298002333 active site 935298002334 HIGH motif; other site 935298002335 KMSK motif region; other site 935298002336 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 935298002337 tRNA binding surface [nucleotide binding]; other site 935298002338 anticodon binding site; other site 935298002339 diaminopimelate decarboxylase; Region: lysA; TIGR01048 935298002340 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 935298002341 active site 935298002342 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935298002343 substrate binding site [chemical binding]; other site 935298002344 catalytic residues [active] 935298002345 dimer interface [polypeptide binding]; other site 935298002346 homoserine dehydrogenase; Provisional; Region: PRK06349 935298002347 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 935298002348 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 935298002349 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 935298002350 homoserine kinase; Provisional; Region: PRK01212 935298002351 Predicted transcriptional regulator [Transcription]; Region: COG2345 935298002352 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 935298002353 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05620 935298002354 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935298002355 acyl-activating enzyme (AAE) consensus motif; other site 935298002356 AMP binding site [chemical binding]; other site 935298002357 active site 935298002358 CoA binding site [chemical binding]; other site 935298002359 transcription termination factor Rho; Provisional; Region: PRK12678 935298002360 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 935298002361 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 935298002362 RNA binding site [nucleotide binding]; other site 935298002363 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 935298002364 multimer interface [polypeptide binding]; other site 935298002365 Walker A motif; other site 935298002366 ATP binding site [chemical binding]; other site 935298002367 Walker B motif; other site 935298002368 peptide chain release factor 1; Validated; Region: prfA; PRK00591 935298002369 This domain is found in peptide chain release factors; Region: PCRF; smart00937 935298002370 RF-1 domain; Region: RF-1; pfam00472 935298002371 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 935298002372 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 935298002373 S-adenosylmethionine binding site [chemical binding]; other site 935298002374 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 935298002375 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 935298002376 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 935298002377 Mg++ binding site [ion binding]; other site 935298002378 putative catalytic motif [active] 935298002379 substrate binding site [chemical binding]; other site 935298002380 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 935298002381 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 935298002382 F0F1 ATP synthase subunit C; Validated; Region: PRK07874 935298002383 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 935298002384 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 935298002385 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 935298002386 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 935298002387 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 935298002388 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 935298002389 beta subunit interaction interface [polypeptide binding]; other site 935298002390 Walker A motif; other site 935298002391 ATP binding site [chemical binding]; other site 935298002392 Walker B motif; other site 935298002393 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 935298002394 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 935298002395 core domain interface [polypeptide binding]; other site 935298002396 delta subunit interface [polypeptide binding]; other site 935298002397 epsilon subunit interface [polypeptide binding]; other site 935298002398 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 935298002399 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 935298002400 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 935298002401 alpha subunit interaction interface [polypeptide binding]; other site 935298002402 Walker A motif; other site 935298002403 ATP binding site [chemical binding]; other site 935298002404 Walker B motif; other site 935298002405 inhibitor binding site; inhibition site 935298002406 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 935298002407 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 935298002408 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 935298002409 gamma subunit interface [polypeptide binding]; other site 935298002410 epsilon subunit interface [polypeptide binding]; other site 935298002411 LBP interface [polypeptide binding]; other site 935298002412 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 935298002413 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 935298002414 hypothetical protein; Provisional; Region: PRK03298 935298002415 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 935298002416 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935298002417 dimer interface [polypeptide binding]; other site 935298002418 substrate binding site [chemical binding]; other site 935298002419 metal binding site [ion binding]; metal-binding site 935298002420 Domain of unknown function DUF77; Region: DUF77; pfam01910 935298002421 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 935298002422 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 935298002423 glycogen branching enzyme; Provisional; Region: PRK05402 935298002424 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 935298002425 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 935298002426 active site 935298002427 catalytic site [active] 935298002428 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 935298002429 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 935298002430 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 935298002431 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 935298002432 active site 935298002433 catalytic site [active] 935298002434 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935298002435 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298002436 Walker A/P-loop; other site 935298002437 ATP binding site [chemical binding]; other site 935298002438 ABC transporter signature motif; other site 935298002439 Walker B; other site 935298002440 D-loop; other site 935298002441 H-loop/switch region; other site 935298002442 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 935298002443 Ligand binding site [chemical binding]; other site 935298002444 Electron transfer flavoprotein domain; Region: ETF; pfam01012 935298002445 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 935298002446 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 935298002447 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 935298002448 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 935298002449 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 935298002450 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935298002451 catalytic residue [active] 935298002452 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 935298002453 S-adenosylmethionine binding site [chemical binding]; other site 935298002454 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 935298002455 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 935298002456 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 935298002457 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 935298002458 active site 935298002459 catalytic site [active] 935298002460 substrate binding site [chemical binding]; other site 935298002461 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 935298002462 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 935298002463 nucleotide binding pocket [chemical binding]; other site 935298002464 K-X-D-G motif; other site 935298002465 catalytic site [active] 935298002466 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 935298002467 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 935298002468 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 935298002469 Dimer interface [polypeptide binding]; other site 935298002470 BRCT sequence motif; other site 935298002471 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 935298002472 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 935298002473 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 935298002474 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 935298002475 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935298002476 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 935298002477 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935298002478 putative substrate translocation pore; other site 935298002479 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 935298002480 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298002481 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 935298002482 ABC-ATPase subunit interface; other site 935298002483 dimer interface [polypeptide binding]; other site 935298002484 putative PBP binding regions; other site 935298002485 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298002486 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 935298002487 Walker A/P-loop; other site 935298002488 ATP binding site [chemical binding]; other site 935298002489 Q-loop/lid; other site 935298002490 ABC transporter signature motif; other site 935298002491 Walker B; other site 935298002492 D-loop; other site 935298002493 H-loop/switch region; other site 935298002494 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 935298002495 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 935298002496 putative ligand binding residues [chemical binding]; other site 935298002497 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 935298002498 phosphofructokinase; Region: PFK_mixed; TIGR02483 935298002499 active site 935298002500 ADP/pyrophosphate binding site [chemical binding]; other site 935298002501 dimerization interface [polypeptide binding]; other site 935298002502 allosteric effector site; other site 935298002503 fructose-1,6-bisphosphate binding site; other site 935298002504 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 935298002505 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 935298002506 GatB domain; Region: GatB_Yqey; smart00845 935298002507 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 935298002508 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 935298002509 active site 935298002510 catalytic tetrad [active] 935298002511 Lysine efflux permease [General function prediction only]; Region: COG1279 935298002512 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 935298002513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935298002514 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 935298002515 dimerization interface [polypeptide binding]; other site 935298002516 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 935298002517 Predicted membrane protein [Function unknown]; Region: COG2259 935298002518 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 935298002519 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 935298002520 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935298002521 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935298002522 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 935298002523 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 935298002524 putative valine binding site [chemical binding]; other site 935298002525 dimer interface [polypeptide binding]; other site 935298002526 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 935298002527 ketol-acid reductoisomerase; Provisional; Region: PRK05479 935298002528 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 935298002529 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 935298002530 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 935298002531 Uncharacterized conserved protein [Function unknown]; Region: COG1479 935298002532 Protein of unknown function DUF262; Region: DUF262; pfam03235 935298002533 Uncharacterized conserved protein [Function unknown]; Region: COG3472 935298002534 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 935298002535 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 935298002536 ligand binding site [chemical binding]; other site 935298002537 NAD binding site [chemical binding]; other site 935298002538 dimerization interface [polypeptide binding]; other site 935298002539 catalytic site [active] 935298002540 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 935298002541 putative L-serine binding site [chemical binding]; other site 935298002542 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 935298002543 tartrate dehydrogenase; Region: TTC; TIGR02089 935298002544 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 935298002545 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 935298002546 ligand binding site [chemical binding]; other site 935298002547 flexible hinge region; other site 935298002548 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 935298002549 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935298002550 metal binding triad; other site 935298002551 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 935298002552 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 935298002553 active site 935298002554 catalytic site [active] 935298002555 substrate binding site [chemical binding]; other site 935298002556 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 935298002557 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 935298002558 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 935298002559 isochorismate synthase DhbC; Validated; Region: PRK06923 935298002560 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 935298002561 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 935298002562 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 935298002563 active site 935298002564 HIGH motif; other site 935298002565 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 935298002566 active site 935298002567 KMSKS motif; other site 935298002568 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 935298002569 biotin synthase; Region: bioB; TIGR00433 935298002570 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 935298002571 FeS/SAM binding site; other site 935298002572 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 935298002573 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 935298002574 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935298002575 Zn2+ binding site [ion binding]; other site 935298002576 Mg2+ binding site [ion binding]; other site 935298002577 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 935298002578 Transcriptional regulator [Transcription]; Region: IclR; COG1414 935298002579 Bacterial transcriptional regulator; Region: IclR; pfam01614 935298002580 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 935298002581 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 935298002582 substrate binding site [chemical binding]; other site 935298002583 ligand binding site [chemical binding]; other site 935298002584 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 935298002585 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 935298002586 substrate binding site [chemical binding]; other site 935298002587 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 935298002588 active site 935298002589 Ap6A binding site [chemical binding]; other site 935298002590 nudix motif; other site 935298002591 metal binding site [ion binding]; metal-binding site 935298002592 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 935298002593 catalytic core [active] 935298002594 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 935298002595 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 935298002596 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 935298002597 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 935298002598 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 935298002599 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935298002600 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 935298002601 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 935298002602 thiamine monophosphate kinase; Provisional; Region: PRK05731 935298002603 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 935298002604 ATP binding site [chemical binding]; other site 935298002605 dimerization interface [polypeptide binding]; other site 935298002606 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 935298002607 ligand binding site [chemical binding]; other site 935298002608 active site 935298002609 UGI interface [polypeptide binding]; other site 935298002610 catalytic site [active] 935298002611 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 935298002612 DAK2 domain; Region: Dak2; pfam02734 935298002613 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 935298002614 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 935298002615 generic binding surface II; other site 935298002616 ssDNA binding site; other site 935298002617 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 935298002618 ATP binding site [chemical binding]; other site 935298002619 putative Mg++ binding site [ion binding]; other site 935298002620 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 935298002621 nucleotide binding region [chemical binding]; other site 935298002622 ATP-binding site [chemical binding]; other site 935298002623 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 935298002624 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 935298002625 carboxyltransferase (CT) interaction site; other site 935298002626 biotinylation site [posttranslational modification]; other site 935298002627 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 935298002628 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 935298002629 S-adenosylmethionine binding site [chemical binding]; other site 935298002630 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 935298002631 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 935298002632 active site 935298002633 (T/H)XGH motif; other site 935298002634 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 935298002635 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 935298002636 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935298002637 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935298002638 Walker A/P-loop; other site 935298002639 ATP binding site [chemical binding]; other site 935298002640 Q-loop/lid; other site 935298002641 ABC transporter signature motif; other site 935298002642 Walker B; other site 935298002643 D-loop; other site 935298002644 H-loop/switch region; other site 935298002645 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 935298002646 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 935298002647 dimer interface [polypeptide binding]; other site 935298002648 conserved gate region; other site 935298002649 putative PBP binding loops; other site 935298002650 ABC-ATPase subunit interface; other site 935298002651 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 935298002652 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935298002653 substrate binding pocket [chemical binding]; other site 935298002654 membrane-bound complex binding site; other site 935298002655 hinge residues; other site 935298002656 Domain of unknown function (DUF368); Region: DUF368; pfam04018 935298002657 DNA polymerase I; Provisional; Region: PRK05755 935298002658 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 935298002659 active site 935298002660 metal binding site 1 [ion binding]; metal-binding site 935298002661 putative 5' ssDNA interaction site; other site 935298002662 metal binding site 3; metal-binding site 935298002663 metal binding site 2 [ion binding]; metal-binding site 935298002664 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 935298002665 putative DNA binding site [nucleotide binding]; other site 935298002666 putative metal binding site [ion binding]; other site 935298002667 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 935298002668 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 935298002669 active site 935298002670 DNA binding site [nucleotide binding] 935298002671 catalytic site [active] 935298002672 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 935298002673 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 935298002674 S-adenosylmethionine binding site [chemical binding]; other site 935298002675 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 935298002676 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 935298002677 RNA binding site [nucleotide binding]; other site 935298002678 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 935298002679 RNA binding site [nucleotide binding]; other site 935298002680 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 935298002681 RNA binding site [nucleotide binding]; other site 935298002682 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 935298002683 RNA binding site [nucleotide binding]; other site 935298002684 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 935298002685 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 935298002686 active site turn [active] 935298002687 phosphorylation site [posttranslational modification] 935298002688 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 935298002689 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 935298002690 HPr interaction site; other site 935298002691 glycerol kinase (GK) interaction site [polypeptide binding]; other site 935298002692 active site 935298002693 phosphorylation site [posttranslational modification] 935298002694 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 935298002695 ATP-binding [chemical binding]; other site 935298002696 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 935298002697 CoA-binding site [chemical binding]; other site 935298002698 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 935298002699 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 935298002700 FeS/SAM binding site; other site 935298002701 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 935298002702 excinuclease ABC subunit B; Provisional; Region: PRK05298 935298002703 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 935298002704 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 935298002705 nucleotide binding region [chemical binding]; other site 935298002706 ATP-binding site [chemical binding]; other site 935298002707 Ultra-violet resistance protein B; Region: UvrB; pfam12344 935298002708 UvrB/uvrC motif; Region: UVR; pfam02151 935298002709 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 935298002710 Ligand Binding Site [chemical binding]; other site 935298002711 Predicted membrane protein [Function unknown]; Region: COG2259 935298002712 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935298002713 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 935298002714 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 935298002715 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 935298002716 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 935298002717 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 935298002718 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 935298002719 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 935298002720 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 935298002721 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 935298002722 23S rRNA binding site [nucleotide binding]; other site 935298002723 L21 binding site [polypeptide binding]; other site 935298002724 L13 binding site [polypeptide binding]; other site 935298002725 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 935298002726 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 935298002727 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935298002728 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 935298002729 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 935298002730 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 935298002731 dimer interface [polypeptide binding]; other site 935298002732 motif 1; other site 935298002733 active site 935298002734 motif 2; other site 935298002735 motif 3; other site 935298002736 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 935298002737 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 935298002738 putative tRNA-binding site [nucleotide binding]; other site 935298002739 B3/4 domain; Region: B3_4; pfam03483 935298002740 tRNA synthetase B5 domain; Region: B5; smart00874 935298002741 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 935298002742 dimer interface [polypeptide binding]; other site 935298002743 motif 1; other site 935298002744 motif 3; other site 935298002745 motif 2; other site 935298002746 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 935298002747 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 935298002748 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 935298002749 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 935298002750 active site pocket [active] 935298002751 cleavage site 935298002752 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 935298002753 feedback inhibition sensing region; other site 935298002754 homohexameric interface [polypeptide binding]; other site 935298002755 nucleotide binding site [chemical binding]; other site 935298002756 N-acetyl-L-glutamate binding site [chemical binding]; other site 935298002757 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 935298002758 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 935298002759 inhibitor-cofactor binding pocket; inhibition site 935298002760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298002761 catalytic residue [active] 935298002762 ornithine carbamoyltransferase; Provisional; Region: PRK00779 935298002763 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935298002764 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935298002765 arginine repressor; Provisional; Region: PRK03341 935298002766 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 935298002767 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 935298002768 argininosuccinate synthase; Provisional; Region: PRK13820 935298002769 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 935298002770 ANP binding site [chemical binding]; other site 935298002771 Substrate Binding Site II [chemical binding]; other site 935298002772 Substrate Binding Site I [chemical binding]; other site 935298002773 argininosuccinate lyase; Provisional; Region: PRK00855 935298002774 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 935298002775 active sites [active] 935298002776 tetramer interface [polypeptide binding]; other site 935298002777 Uncharacterized conserved protein [Function unknown]; Region: COG2835 935298002778 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 935298002779 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 935298002780 active site 935298002781 HIGH motif; other site 935298002782 dimer interface [polypeptide binding]; other site 935298002783 KMSKS motif; other site 935298002784 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 935298002785 RNA binding surface [nucleotide binding]; other site 935298002786 transcription termination factor Rho; Provisional; Region: PRK12678 935298002787 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 935298002788 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 935298002789 active site 935298002790 motif I; other site 935298002791 motif II; other site 935298002792 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 935298002793 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 935298002794 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 935298002795 RNA binding surface [nucleotide binding]; other site 935298002796 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 935298002797 S-adenosylmethionine binding site [chemical binding]; other site 935298002798 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 935298002799 ATP-NAD kinase; Region: NAD_kinase; pfam01513 935298002800 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 935298002801 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 935298002802 Walker A/P-loop; other site 935298002803 ATP binding site [chemical binding]; other site 935298002804 Q-loop/lid; other site 935298002805 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 935298002806 ABC transporter signature motif; other site 935298002807 Walker B; other site 935298002808 D-loop; other site 935298002809 H-loop/switch region; other site 935298002810 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 935298002811 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 935298002812 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 935298002813 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 935298002814 dimer interface [polypeptide binding]; other site 935298002815 ADP-ribose binding site [chemical binding]; other site 935298002816 active site 935298002817 nudix motif; other site 935298002818 metal binding site [ion binding]; metal-binding site 935298002819 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 935298002820 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 935298002821 active site 935298002822 Int/Topo IB signature motif; other site 935298002823 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 935298002824 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 935298002825 P-loop; other site 935298002826 Magnesium ion binding site [ion binding]; other site 935298002827 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 935298002828 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 935298002829 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 935298002830 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 935298002831 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 935298002832 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05630 935298002833 inhibitor-cofactor binding pocket; inhibition site 935298002834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298002835 catalytic residue [active] 935298002836 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 935298002837 AAA domain; Region: AAA_26; pfam13500 935298002838 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 935298002839 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 935298002840 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 935298002841 RNA binding surface [nucleotide binding]; other site 935298002842 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 935298002843 active site 935298002844 cytidylate kinase; Provisional; Region: cmk; PRK00023 935298002845 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 935298002846 CMP-binding site; other site 935298002847 The sites determining sugar specificity; other site 935298002848 GTP-binding protein Der; Reviewed; Region: PRK03003 935298002849 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 935298002850 G1 box; other site 935298002851 GTP/Mg2+ binding site [chemical binding]; other site 935298002852 Switch I region; other site 935298002853 G2 box; other site 935298002854 Switch II region; other site 935298002855 G3 box; other site 935298002856 G4 box; other site 935298002857 G5 box; other site 935298002858 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 935298002859 G1 box; other site 935298002860 GTP/Mg2+ binding site [chemical binding]; other site 935298002861 Switch I region; other site 935298002862 G2 box; other site 935298002863 G3 box; other site 935298002864 Switch II region; other site 935298002865 G4 box; other site 935298002866 G5 box; other site 935298002867 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 935298002868 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 935298002869 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 935298002870 S-adenosylmethionine binding site [chemical binding]; other site 935298002871 Predicted esterase [General function prediction only]; Region: COG0627 935298002872 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 935298002873 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 935298002874 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 935298002875 intersubunit interface [polypeptide binding]; other site 935298002876 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298002877 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 935298002878 dimer interface [polypeptide binding]; other site 935298002879 ABC-ATPase subunit interface; other site 935298002880 putative PBP binding regions; other site 935298002881 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298002882 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 935298002883 ABC-ATPase subunit interface; other site 935298002884 dimer interface [polypeptide binding]; other site 935298002885 putative PBP binding regions; other site 935298002886 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935298002887 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298002888 Walker A/P-loop; other site 935298002889 ATP binding site [chemical binding]; other site 935298002890 Q-loop/lid; other site 935298002891 ABC transporter signature motif; other site 935298002892 Walker B; other site 935298002893 D-loop; other site 935298002894 H-loop/switch region; other site 935298002895 IucA / IucC family; Region: IucA_IucC; pfam04183 935298002896 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 935298002897 IucA / IucC family; Region: IucA_IucC; pfam04183 935298002898 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 935298002899 H+ Antiporter protein; Region: 2A0121; TIGR00900 935298002900 hypothetical protein; Provisional; Region: PRK01842 935298002901 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935298002902 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 935298002903 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 935298002904 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 935298002905 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 935298002906 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 935298002907 nucleotide binding region [chemical binding]; other site 935298002908 ATP-binding site [chemical binding]; other site 935298002909 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 935298002910 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 935298002911 phosphopeptide binding site; other site 935298002912 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 935298002913 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 935298002914 DNA binding residues [nucleotide binding] 935298002915 Bifunctional nuclease; Region: DNase-RNase; pfam02577 935298002916 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 935298002917 DNA binding residues [nucleotide binding] 935298002918 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 935298002919 putative dimer interface [polypeptide binding]; other site 935298002920 Domain of unknown function DUF21; Region: DUF21; pfam01595 935298002921 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 935298002922 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 935298002923 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 935298002924 Domain of unknown function DUF21; Region: DUF21; pfam01595 935298002925 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 935298002926 Transporter associated domain; Region: CorC_HlyC; smart01091 935298002927 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 935298002928 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 935298002929 ATP binding site [chemical binding]; other site 935298002930 putative Mg++ binding site [ion binding]; other site 935298002931 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 935298002932 nucleotide binding region [chemical binding]; other site 935298002933 ATP-binding site [chemical binding]; other site 935298002934 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 935298002935 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 935298002936 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 935298002937 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 935298002938 CoenzymeA binding site [chemical binding]; other site 935298002939 subunit interaction site [polypeptide binding]; other site 935298002940 PHB binding site; other site 935298002941 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 935298002942 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 935298002943 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 935298002944 oligomer interface [polypeptide binding]; other site 935298002945 metal binding site [ion binding]; metal-binding site 935298002946 metal binding site [ion binding]; metal-binding site 935298002947 putative Cl binding site [ion binding]; other site 935298002948 basic sphincter; other site 935298002949 hydrophobic gate; other site 935298002950 periplasmic entrance; other site 935298002951 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 935298002952 S-adenosylmethionine binding site [chemical binding]; other site 935298002953 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 935298002954 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935298002955 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 935298002956 metabolite-proton symporter; Region: 2A0106; TIGR00883 935298002957 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 935298002958 putative substrate translocation pore; other site 935298002959 YceI-like domain; Region: YceI; pfam04264 935298002960 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 935298002961 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 935298002962 Ligand binding site; other site 935298002963 Putative Catalytic site; other site 935298002964 DXD motif; other site 935298002965 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 935298002966 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 935298002967 putative active site [active] 935298002968 catalytic triad [active] 935298002969 putative dimer interface [polypeptide binding]; other site 935298002970 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 935298002971 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 935298002972 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 935298002973 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 935298002974 precorrin-3B synthase; Region: CobG; TIGR02435 935298002975 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935298002976 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935298002977 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 935298002978 Precorrin-8X methylmutase; Region: CbiC; pfam02570 935298002979 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 935298002980 active site 935298002981 SAM binding site [chemical binding]; other site 935298002982 homodimer interface [polypeptide binding]; other site 935298002983 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 935298002984 active site 935298002985 SAM binding site [chemical binding]; other site 935298002986 homodimer interface [polypeptide binding]; other site 935298002987 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 935298002988 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 935298002989 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 935298002990 active site 935298002991 SAM binding site [chemical binding]; other site 935298002992 homodimer interface [polypeptide binding]; other site 935298002993 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 935298002994 active site 935298002995 putative homodimer interface [polypeptide binding]; other site 935298002996 SAM binding site [chemical binding]; other site 935298002997 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 935298002998 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 935298002999 S-adenosylmethionine binding site [chemical binding]; other site 935298003000 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 935298003001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935298003002 NAD(P) binding site [chemical binding]; other site 935298003003 active site 935298003004 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 935298003005 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 935298003006 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 935298003007 active site 935298003008 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 935298003009 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 935298003010 ATP binding site [chemical binding]; other site 935298003011 putative Mg++ binding site [ion binding]; other site 935298003012 helicase superfamily c-terminal domain; Region: HELICc; smart00490 935298003013 nucleotide binding region [chemical binding]; other site 935298003014 ATP-binding site [chemical binding]; other site 935298003015 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 935298003016 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 935298003017 twin arginine translocase protein A; Provisional; Region: tatA; PRK00191 935298003018 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 935298003019 Predicted transcriptional regulator [Transcription]; Region: COG2378 935298003020 WYL domain; Region: WYL; pfam13280 935298003021 Predicted transcriptional regulator [Transcription]; Region: COG2378 935298003022 WYL domain; Region: WYL; pfam13280 935298003023 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 935298003024 Pup-like protein; Region: Pup; pfam05639 935298003025 Pup-ligase protein; Region: Pup_ligase; cl15463 935298003026 proteasome ATPase; Region: pup_AAA; TIGR03689 935298003027 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 935298003028 Walker A motif; other site 935298003029 ATP binding site [chemical binding]; other site 935298003030 Walker B motif; other site 935298003031 arginine finger; other site 935298003032 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 935298003033 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 935298003034 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 935298003035 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 935298003036 active site 935298003037 metal binding site [ion binding]; metal-binding site 935298003038 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 935298003039 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 935298003040 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 935298003041 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 935298003042 Potassium binding sites [ion binding]; other site 935298003043 Cesium cation binding sites [ion binding]; other site 935298003044 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 935298003045 Aspartase; Region: Aspartase; cd01357 935298003046 active sites [active] 935298003047 tetramer interface [polypeptide binding]; other site 935298003048 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 935298003049 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 935298003050 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 935298003051 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 935298003052 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 935298003053 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 935298003054 homodimer interface [polypeptide binding]; other site 935298003055 putative metal binding site [ion binding]; other site 935298003056 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 935298003057 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 935298003058 motif II; other site 935298003059 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 935298003060 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 935298003061 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 935298003062 substrate binding pocket [chemical binding]; other site 935298003063 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 935298003064 B12 binding site [chemical binding]; other site 935298003065 cobalt ligand [ion binding]; other site 935298003066 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 935298003067 cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase; Region: mycothiol_MshC; TIGR03447 935298003068 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935298003069 active site 935298003070 HIGH motif; other site 935298003071 nucleotide binding site [chemical binding]; other site 935298003072 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935298003073 active site 935298003074 KMSKS motif; other site 935298003075 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 935298003076 tRNA binding surface [nucleotide binding]; other site 935298003077 anticodon binding site; other site 935298003078 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 935298003079 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 935298003080 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 935298003081 active site 935298003082 catalytic tetrad [active] 935298003083 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 935298003084 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 935298003085 quinone interaction residues [chemical binding]; other site 935298003086 active site 935298003087 catalytic residues [active] 935298003088 FMN binding site [chemical binding]; other site 935298003089 substrate binding site [chemical binding]; other site 935298003090 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 935298003091 substrate binding site [chemical binding]; other site 935298003092 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 935298003093 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 935298003094 dimerization domain swap beta strand [polypeptide binding]; other site 935298003095 regulatory protein interface [polypeptide binding]; other site 935298003096 active site 935298003097 regulatory phosphorylation site [posttranslational modification]; other site 935298003098 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 935298003099 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 935298003100 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 935298003101 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 935298003102 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935298003103 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 935298003104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935298003105 NAD(P) binding site [chemical binding]; other site 935298003106 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 935298003107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935298003108 NAD(P) binding site [chemical binding]; other site 935298003109 active site 935298003110 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 935298003111 GTP/Mg2+ binding site [chemical binding]; other site 935298003112 G4 box; other site 935298003113 membrane ATPase/protein kinase; Provisional; Region: PRK09435 935298003114 G5 box; other site 935298003115 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 935298003116 Walker A; other site 935298003117 G1 box; other site 935298003118 Switch I region; other site 935298003119 G2 box; other site 935298003120 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 935298003121 G4 box; other site 935298003122 G5 box; other site 935298003123 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 935298003124 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 935298003125 active site 935298003126 substrate binding site [chemical binding]; other site 935298003127 coenzyme B12 binding site [chemical binding]; other site 935298003128 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 935298003129 B12 binding site [chemical binding]; other site 935298003130 cobalt ligand [ion binding]; other site 935298003131 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 935298003132 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 935298003133 heterodimer interface [polypeptide binding]; other site 935298003134 substrate interaction site [chemical binding]; other site 935298003135 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 935298003136 Uncharacterized conserved protein [Function unknown]; Region: COG0398 935298003137 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 935298003138 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 935298003139 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 935298003140 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 935298003141 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 935298003142 ferrochelatase; Reviewed; Region: hemH; PRK00035 935298003143 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 935298003144 C-terminal domain interface [polypeptide binding]; other site 935298003145 active site 935298003146 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 935298003147 active site 935298003148 N-terminal domain interface [polypeptide binding]; other site 935298003149 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935298003150 NlpC/P60 family; Region: NLPC_P60; pfam00877 935298003151 pyruvate carboxylase subunit A; Validated; Region: PRK07178 935298003152 aconitate hydratase; Validated; Region: PRK09277 935298003153 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 935298003154 substrate binding site [chemical binding]; other site 935298003155 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 935298003156 ligand binding site [chemical binding]; other site 935298003157 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 935298003158 substrate binding site [chemical binding]; other site 935298003159 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 935298003160 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298003161 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 935298003162 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cd03128 935298003163 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 935298003164 catalytic triad [active] 935298003165 conserved cys residue [active] 935298003166 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 935298003167 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 935298003168 AAA ATPase domain; Region: AAA_16; pfam13191 935298003169 AAA domain; Region: AAA_22; pfam13401 935298003170 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 935298003171 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935298003172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298003173 Walker A/P-loop; other site 935298003174 ATP binding site [chemical binding]; other site 935298003175 Q-loop/lid; other site 935298003176 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935298003177 ABC transporter signature motif; other site 935298003178 Walker B; other site 935298003179 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935298003180 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 935298003181 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 935298003182 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 935298003183 trimerization site [polypeptide binding]; other site 935298003184 active site 935298003185 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 935298003186 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 935298003187 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935298003188 catalytic residue [active] 935298003189 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 935298003190 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 935298003191 Walker A/P-loop; other site 935298003192 ATP binding site [chemical binding]; other site 935298003193 Q-loop/lid; other site 935298003194 ABC transporter signature motif; other site 935298003195 Walker B; other site 935298003196 D-loop; other site 935298003197 H-loop/switch region; other site 935298003198 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 935298003199 FeS assembly protein SufD; Region: sufD; TIGR01981 935298003200 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 935298003201 FeS assembly protein SufB; Region: sufB; TIGR01980 935298003202 Predicted transcriptional regulator [Transcription]; Region: COG2345 935298003203 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 935298003204 putative DNA binding site [nucleotide binding]; other site 935298003205 putative Zn2+ binding site [ion binding]; other site 935298003206 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 935298003207 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 935298003208 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935298003209 Walker A/P-loop; other site 935298003210 ATP binding site [chemical binding]; other site 935298003211 Q-loop/lid; other site 935298003212 ABC transporter signature motif; other site 935298003213 Walker B; other site 935298003214 D-loop; other site 935298003215 H-loop/switch region; other site 935298003216 ABC-2 type transporter; Region: ABC2_membrane; cl17235 935298003217 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 935298003218 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 935298003219 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 935298003220 UbiA prenyltransferase family; Region: UbiA; pfam01040 935298003221 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 935298003222 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 935298003223 TPP-binding site [chemical binding]; other site 935298003224 dimer interface [polypeptide binding]; other site 935298003225 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 935298003226 PYR/PP interface [polypeptide binding]; other site 935298003227 dimer interface [polypeptide binding]; other site 935298003228 TPP binding site [chemical binding]; other site 935298003229 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935298003230 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 935298003231 putative active site [active] 935298003232 transaldolase; Provisional; Region: PRK03903 935298003233 catalytic residue [active] 935298003234 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 935298003235 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 935298003236 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 935298003237 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 935298003238 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 935298003239 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 935298003240 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 935298003241 putative active site [active] 935298003242 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 935298003243 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 935298003244 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 935298003245 triosephosphate isomerase; Provisional; Region: PRK14567 935298003246 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 935298003247 substrate binding site [chemical binding]; other site 935298003248 dimer interface [polypeptide binding]; other site 935298003249 catalytic triad [active] 935298003250 Phosphoglycerate kinase; Region: PGK; pfam00162 935298003251 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 935298003252 substrate binding site [chemical binding]; other site 935298003253 hinge regions; other site 935298003254 ADP binding site [chemical binding]; other site 935298003255 catalytic site [active] 935298003256 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 935298003257 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 935298003258 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935298003259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 935298003260 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 935298003261 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 935298003262 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 935298003263 phosphate binding site [ion binding]; other site 935298003264 putative substrate binding pocket [chemical binding]; other site 935298003265 dimer interface [polypeptide binding]; other site 935298003266 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 935298003267 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 935298003268 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 935298003269 GIY-YIG motif/motif A; other site 935298003270 active site 935298003271 catalytic site [active] 935298003272 putative DNA binding site [nucleotide binding]; other site 935298003273 metal binding site [ion binding]; metal-binding site 935298003274 UvrB/uvrC motif; Region: UVR; pfam02151 935298003275 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 935298003276 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 935298003277 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 935298003278 homopentamer interface [polypeptide binding]; other site 935298003279 active site 935298003280 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 935298003281 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 935298003282 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 935298003283 dimerization interface [polypeptide binding]; other site 935298003284 active site 935298003285 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 935298003286 Lumazine binding domain; Region: Lum_binding; pfam00677 935298003287 Lumazine binding domain; Region: Lum_binding; pfam00677 935298003288 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 935298003289 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 935298003290 catalytic motif [active] 935298003291 Zn binding site [ion binding]; other site 935298003292 RibD C-terminal domain; Region: RibD_C; pfam01872 935298003293 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 935298003294 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 935298003295 substrate binding site [chemical binding]; other site 935298003296 hexamer interface [polypeptide binding]; other site 935298003297 metal binding site [ion binding]; metal-binding site 935298003298 16S rRNA methyltransferase B; Provisional; Region: PRK14902 935298003299 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 935298003300 putative RNA binding site [nucleotide binding]; other site 935298003301 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 935298003302 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 935298003303 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 935298003304 putative active site [active] 935298003305 substrate binding site [chemical binding]; other site 935298003306 putative cosubstrate binding site; other site 935298003307 catalytic site [active] 935298003308 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 935298003309 substrate binding site [chemical binding]; other site 935298003310 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 935298003311 active site 935298003312 catalytic residues [active] 935298003313 metal binding site [ion binding]; metal-binding site 935298003314 primosome assembly protein PriA; Provisional; Region: PRK14873 935298003315 S-adenosylmethionine synthetase; Validated; Region: PRK05250 935298003316 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 935298003317 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 935298003318 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 935298003319 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 935298003320 Flavoprotein; Region: Flavoprotein; pfam02441 935298003321 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 935298003322 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 935298003323 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 935298003324 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 935298003325 catalytic site [active] 935298003326 G-X2-G-X-G-K; other site 935298003327 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 935298003328 active site 935298003329 dimer interface [polypeptide binding]; other site 935298003330 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 935298003331 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935298003332 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935298003333 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 935298003334 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935298003335 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935298003336 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 935298003337 IMP binding site; other site 935298003338 dimer interface [polypeptide binding]; other site 935298003339 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 935298003340 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 935298003341 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 935298003342 catalytic site [active] 935298003343 subunit interface [polypeptide binding]; other site 935298003344 dihydroorotase; Validated; Region: pyrC; PRK09357 935298003345 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 935298003346 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 935298003347 active site 935298003348 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 935298003349 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935298003350 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935298003351 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 935298003352 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298003353 active site 935298003354 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 935298003355 putative hydrophobic ligand binding site [chemical binding]; other site 935298003356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935298003357 TIGR01777 family protein; Region: yfcH 935298003358 NAD(P) binding site [chemical binding]; other site 935298003359 active site 935298003360 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 935298003361 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 935298003362 putative RNA binding site [nucleotide binding]; other site 935298003363 elongation factor P; Validated; Region: PRK00529 935298003364 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 935298003365 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 935298003366 RNA binding site [nucleotide binding]; other site 935298003367 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 935298003368 RNA binding site [nucleotide binding]; other site 935298003369 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 935298003370 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 935298003371 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 935298003372 active site 935298003373 Dehydroquinase class II; Region: DHquinase_II; pfam01220 935298003374 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 935298003375 trimer interface [polypeptide binding]; other site 935298003376 active site 935298003377 dimer interface [polypeptide binding]; other site 935298003378 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 935298003379 active site 935298003380 dimer interface [polypeptide binding]; other site 935298003381 metal binding site [ion binding]; metal-binding site 935298003382 shikimate kinase; Reviewed; Region: aroK; PRK00131 935298003383 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 935298003384 ADP binding site [chemical binding]; other site 935298003385 magnesium binding site [ion binding]; other site 935298003386 putative shikimate binding site; other site 935298003387 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 935298003388 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 935298003389 Tetramer interface [polypeptide binding]; other site 935298003390 active site 935298003391 FMN-binding site [chemical binding]; other site 935298003392 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 935298003393 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 935298003394 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 935298003395 shikimate binding site; other site 935298003396 NAD(P) binding site [chemical binding]; other site 935298003397 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 935298003398 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 935298003399 dimerization interface [polypeptide binding]; other site 935298003400 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 935298003401 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 935298003402 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 935298003403 motif 1; other site 935298003404 active site 935298003405 motif 2; other site 935298003406 motif 3; other site 935298003407 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 935298003408 DHHA1 domain; Region: DHHA1; pfam02272 935298003409 recombination factor protein RarA; Reviewed; Region: PRK13342 935298003410 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 935298003411 Walker A motif; other site 935298003412 ATP binding site [chemical binding]; other site 935298003413 Walker B motif; other site 935298003414 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 935298003415 Phosphotransferase enzyme family; Region: APH; pfam01636 935298003416 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 935298003417 substrate binding site [chemical binding]; other site 935298003418 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 935298003419 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 935298003420 dimer interface [polypeptide binding]; other site 935298003421 anticodon binding site; other site 935298003422 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 935298003423 homodimer interface [polypeptide binding]; other site 935298003424 motif 1; other site 935298003425 active site 935298003426 motif 2; other site 935298003427 GAD domain; Region: GAD; pfam02938 935298003428 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 935298003429 active site 935298003430 motif 3; other site 935298003431 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 935298003432 DEAD-like helicases superfamily; Region: DEXDc; smart00487 935298003433 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 935298003434 ATP binding site [chemical binding]; other site 935298003435 putative Mg++ binding site [ion binding]; other site 935298003436 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 935298003437 nucleotide binding region [chemical binding]; other site 935298003438 ATP-binding site [chemical binding]; other site 935298003439 Predicted membrane protein [Function unknown]; Region: COG1511 935298003440 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 935298003441 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 935298003442 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 935298003443 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 935298003444 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 935298003445 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935298003446 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298003447 LLM-partnered FMN reductase, CE1759 family; Region: LLM_duo_CE1759; TIGR04037 935298003448 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 935298003449 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 935298003450 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 935298003451 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 935298003452 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 935298003453 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 935298003454 putative active site [active] 935298003455 putative catalytic site [active] 935298003456 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 935298003457 CoA-transferase family III; Region: CoA_transf_3; pfam02515 935298003458 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 935298003459 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 935298003460 dimer interface [polypeptide binding]; other site 935298003461 motif 1; other site 935298003462 active site 935298003463 motif 2; other site 935298003464 motif 3; other site 935298003465 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 935298003466 anticodon binding site; other site 935298003467 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935298003468 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 935298003469 dimer interface [polypeptide binding]; other site 935298003470 catalytic triad [active] 935298003471 peroxidatic and resolving cysteines [active] 935298003472 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 935298003473 active site 935298003474 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 935298003475 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935298003476 Zn2+ binding site [ion binding]; other site 935298003477 Mg2+ binding site [ion binding]; other site 935298003478 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 935298003479 synthetase active site [active] 935298003480 NTP binding site [chemical binding]; other site 935298003481 metal binding site [ion binding]; metal-binding site 935298003482 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 935298003483 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 935298003484 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298003485 active site 935298003486 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935298003487 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 935298003488 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 935298003489 Protein export membrane protein; Region: SecD_SecF; pfam02355 935298003490 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 935298003491 Protein export membrane protein; Region: SecD_SecF; cl14618 935298003492 Preprotein translocase subunit; Region: YajC; pfam02699 935298003493 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 935298003494 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 935298003495 Walker A motif; other site 935298003496 ATP binding site [chemical binding]; other site 935298003497 Walker B motif; other site 935298003498 arginine finger; other site 935298003499 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 935298003500 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 935298003501 RuvA N terminal domain; Region: RuvA_N; pfam01330 935298003502 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 935298003503 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 935298003504 active site 935298003505 putative DNA-binding cleft [nucleotide binding]; other site 935298003506 dimer interface [polypeptide binding]; other site 935298003507 hypothetical protein; Validated; Region: PRK00110 935298003508 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 935298003509 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 935298003510 active site 935298003511 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 935298003512 catalytic triad [active] 935298003513 dimer interface [polypeptide binding]; other site 935298003514 Protein of unknown function (DUF998); Region: DUF998; pfam06197 935298003515 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 935298003516 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 935298003517 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 935298003518 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935298003519 catalytic residue [active] 935298003520 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935298003521 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 935298003522 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 935298003523 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 935298003524 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935298003525 putative acyl-acceptor binding pocket; other site 935298003526 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 935298003527 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 935298003528 nucleotide binding site/active site [active] 935298003529 HIT family signature motif; other site 935298003530 catalytic residue [active] 935298003531 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 935298003532 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 935298003533 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 935298003534 active site 935298003535 dimer interface [polypeptide binding]; other site 935298003536 motif 1; other site 935298003537 motif 2; other site 935298003538 motif 3; other site 935298003539 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 935298003540 anticodon binding site; other site 935298003541 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 935298003542 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 935298003543 Protein of unknown function (DUF461); Region: DUF461; pfam04314 935298003544 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 935298003545 hypothetical protein; Provisional; Region: PRK14059 935298003546 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 935298003547 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 935298003548 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 935298003549 SelR domain; Region: SelR; pfam01641 935298003550 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 935298003551 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 935298003552 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 935298003553 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 935298003554 catalytic site [active] 935298003555 putative active site [active] 935298003556 putative substrate binding site [chemical binding]; other site 935298003557 HRDC domain; Region: HRDC; pfam00570 935298003558 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 935298003559 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 935298003560 TPP-binding site; other site 935298003561 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 935298003562 PYR/PP interface [polypeptide binding]; other site 935298003563 dimer interface [polypeptide binding]; other site 935298003564 TPP binding site [chemical binding]; other site 935298003565 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935298003566 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 935298003567 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 935298003568 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 935298003569 S-adenosylmethionine binding site [chemical binding]; other site 935298003570 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 935298003571 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 935298003572 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 935298003573 trimer interface [polypeptide binding]; other site 935298003574 active site 935298003575 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 935298003576 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 935298003577 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935298003578 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935298003579 nucleotide binding site [chemical binding]; other site 935298003580 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 935298003581 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 935298003582 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935298003583 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 935298003584 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 935298003585 DNA binding residues [nucleotide binding] 935298003586 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 935298003587 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 935298003588 ATP binding site [chemical binding]; other site 935298003589 putative Mg++ binding site [ion binding]; other site 935298003590 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 935298003591 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 935298003592 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 935298003593 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 935298003594 S-adenosylmethionine binding site [chemical binding]; other site 935298003595 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 935298003596 putative active site [active] 935298003597 dimerization interface [polypeptide binding]; other site 935298003598 putative tRNAtyr binding site [nucleotide binding]; other site 935298003599 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 935298003600 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 935298003601 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935298003602 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 935298003603 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 935298003604 DNA binding residues [nucleotide binding] 935298003605 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 935298003606 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 935298003607 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 935298003608 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 935298003609 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 935298003610 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 935298003611 NAD binding site [chemical binding]; other site 935298003612 homodimer interface [polypeptide binding]; other site 935298003613 active site 935298003614 substrate binding site [chemical binding]; other site 935298003615 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 935298003616 PAC2 family; Region: PAC2; pfam09754 935298003617 DEAD-like helicases superfamily; Region: DEXDc; smart00487 935298003618 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 935298003619 ATP binding site [chemical binding]; other site 935298003620 putative Mg++ binding site [ion binding]; other site 935298003621 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 935298003622 nucleotide binding region [chemical binding]; other site 935298003623 ATP-binding site [chemical binding]; other site 935298003624 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 935298003625 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 935298003626 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 935298003627 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 935298003628 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 935298003629 dimer interface [polypeptide binding]; other site 935298003630 decamer (pentamer of dimers) interface [polypeptide binding]; other site 935298003631 catalytic triad [active] 935298003632 peroxidatic and resolving cysteines [active] 935298003633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935298003634 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 935298003635 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 935298003636 dimerization interface [polypeptide binding]; other site 935298003637 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 935298003638 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 935298003639 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 935298003640 ATP binding site [chemical binding]; other site 935298003641 putative Mg++ binding site [ion binding]; other site 935298003642 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 935298003643 nucleotide binding region [chemical binding]; other site 935298003644 ATP-binding site [chemical binding]; other site 935298003645 Helicase associated domain (HA2); Region: HA2; pfam04408 935298003646 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 935298003647 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 935298003648 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 935298003649 ATP cone domain; Region: ATP-cone; pfam03477 935298003650 LexA repressor; Validated; Region: PRK00215 935298003651 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 935298003652 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 935298003653 Catalytic site [active] 935298003654 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935298003655 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 935298003656 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935298003657 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 935298003658 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 935298003659 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935298003660 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 935298003661 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935298003662 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935298003663 DNA-binding site [nucleotide binding]; DNA binding site 935298003664 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935298003665 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 935298003666 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 935298003667 putative substrate binding site [chemical binding]; other site 935298003668 putative ATP binding site [chemical binding]; other site 935298003669 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 935298003670 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 935298003671 active site 935298003672 phosphorylation site [posttranslational modification] 935298003673 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 935298003674 active site 935298003675 P-loop; other site 935298003676 phosphorylation site [posttranslational modification] 935298003677 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 935298003678 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 935298003679 dimerization domain swap beta strand [polypeptide binding]; other site 935298003680 regulatory protein interface [polypeptide binding]; other site 935298003681 active site 935298003682 regulatory phosphorylation site [posttranslational modification]; other site 935298003683 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 935298003684 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 935298003685 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 935298003686 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 935298003687 LLM-partnered FMN reductase, CE1759 family; Region: LLM_duo_CE1759; TIGR04037 935298003688 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 935298003689 GTPases [General function prediction only]; Region: HflX; COG2262 935298003690 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 935298003691 HflX GTPase family; Region: HflX; cd01878 935298003692 G1 box; other site 935298003693 GTP/Mg2+ binding site [chemical binding]; other site 935298003694 Switch I region; other site 935298003695 G2 box; other site 935298003696 G3 box; other site 935298003697 Switch II region; other site 935298003698 G4 box; other site 935298003699 G5 box; other site 935298003700 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 935298003701 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 935298003702 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 935298003703 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 935298003704 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 935298003705 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 935298003706 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 935298003707 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 935298003708 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 935298003709 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 935298003710 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 935298003711 FeS/SAM binding site; other site 935298003712 recombination regulator RecX; Reviewed; Region: recX; PRK00117 935298003713 recombinase A; Provisional; Region: recA; PRK09354 935298003714 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 935298003715 hexamer interface [polypeptide binding]; other site 935298003716 Walker A motif; other site 935298003717 ATP binding site [chemical binding]; other site 935298003718 Walker B motif; other site 935298003719 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 935298003720 BioY family; Region: BioY; pfam02632 935298003721 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 935298003722 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 935298003723 Walker A/P-loop; other site 935298003724 ATP binding site [chemical binding]; other site 935298003725 Q-loop/lid; other site 935298003726 ABC transporter signature motif; other site 935298003727 Walker B; other site 935298003728 D-loop; other site 935298003729 H-loop/switch region; other site 935298003730 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 935298003731 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 935298003732 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 935298003733 sequence-specific DNA binding site [nucleotide binding]; other site 935298003734 salt bridge; other site 935298003735 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 935298003736 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 935298003737 YCII-related domain; Region: YCII; cl00999 935298003738 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 935298003739 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 935298003740 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 935298003741 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 935298003742 TIGR03085 family protein; Region: TIGR03085 935298003743 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 935298003744 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935298003745 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 935298003746 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 935298003747 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 935298003748 dimer interface [polypeptide binding]; other site 935298003749 active site 935298003750 catalytic residue [active] 935298003751 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 935298003752 dihydrodipicolinate reductase; Provisional; Region: PRK00048 935298003753 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 935298003754 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 935298003755 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 935298003756 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 935298003757 oligomer interface [polypeptide binding]; other site 935298003758 RNA binding site [nucleotide binding]; other site 935298003759 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 935298003760 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 935298003761 RNase E interface [polypeptide binding]; other site 935298003762 trimer interface [polypeptide binding]; other site 935298003763 active site 935298003764 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 935298003765 putative nucleic acid binding region [nucleotide binding]; other site 935298003766 G-X-X-G motif; other site 935298003767 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 935298003768 RNA binding site [nucleotide binding]; other site 935298003769 domain interface; other site 935298003770 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 935298003771 16S/18S rRNA binding site [nucleotide binding]; other site 935298003772 S13e-L30e interaction site [polypeptide binding]; other site 935298003773 25S rRNA binding site [nucleotide binding]; other site 935298003774 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 935298003775 active site 935298003776 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 935298003777 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 935298003778 active site 935298003779 Riboflavin kinase; Region: Flavokinase; smart00904 935298003780 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 935298003781 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 935298003782 RNA binding site [nucleotide binding]; other site 935298003783 active site 935298003784 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 935298003785 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 935298003786 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 935298003787 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 935298003788 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 935298003789 active site 935298003790 metal binding site [ion binding]; metal-binding site 935298003791 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 935298003792 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 935298003793 DHH family; Region: DHH; pfam01368 935298003794 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 935298003795 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 935298003796 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935298003797 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935298003798 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 935298003799 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 935298003800 G1 box; other site 935298003801 putative GEF interaction site [polypeptide binding]; other site 935298003802 GTP/Mg2+ binding site [chemical binding]; other site 935298003803 Switch I region; other site 935298003804 G2 box; other site 935298003805 G3 box; other site 935298003806 Switch II region; other site 935298003807 G4 box; other site 935298003808 G5 box; other site 935298003809 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 935298003810 Translation-initiation factor 2; Region: IF-2; pfam11987 935298003811 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 935298003812 Protein of unknown function (DUF448); Region: DUF448; pfam04296 935298003813 putative RNA binding cleft [nucleotide binding]; other site 935298003814 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 935298003815 NusA N-terminal domain; Region: NusA_N; pfam08529 935298003816 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 935298003817 RNA binding site [nucleotide binding]; other site 935298003818 homodimer interface [polypeptide binding]; other site 935298003819 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 935298003820 G-X-X-G motif; other site 935298003821 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 935298003822 G-X-X-G motif; other site 935298003823 ribosome maturation protein RimP; Reviewed; Region: PRK00092 935298003824 Sm and related proteins; Region: Sm_like; cl00259 935298003825 prolyl-tRNA synthetase; Provisional; Region: PRK09194 935298003826 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 935298003827 dimer interface [polypeptide binding]; other site 935298003828 motif 1; other site 935298003829 active site 935298003830 motif 2; other site 935298003831 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 935298003832 putative deacylase active site [active] 935298003833 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 935298003834 active site 935298003835 motif 3; other site 935298003836 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 935298003837 anticodon binding site; other site 935298003838 hypothetical protein; Validated; Region: PRK02101 935298003839 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 935298003840 active site 935298003841 SAM binding site [chemical binding]; other site 935298003842 homodimer interface [polypeptide binding]; other site 935298003843 hypothetical protein; Validated; Region: PRK00029 935298003844 Uncharacterized conserved protein [Function unknown]; Region: COG0397 935298003845 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 935298003846 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 935298003847 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 935298003848 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 935298003849 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 935298003850 DNA binding site [nucleotide binding] 935298003851 active site 935298003852 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 935298003853 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 935298003854 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 935298003855 catalytic triad [active] 935298003856 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 935298003857 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 935298003858 homodimer interface [polypeptide binding]; other site 935298003859 Walker A motif; other site 935298003860 ATP binding site [chemical binding]; other site 935298003861 hydroxycobalamin binding site [chemical binding]; other site 935298003862 Walker B motif; other site 935298003863 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 935298003864 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 935298003865 metal ion-dependent adhesion site (MIDAS); other site 935298003866 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 935298003867 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 935298003868 Walker A motif; other site 935298003869 ATP binding site [chemical binding]; other site 935298003870 Walker B motif; other site 935298003871 arginine finger; other site 935298003872 malate:quinone oxidoreductase; Validated; Region: PRK05257 935298003873 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 935298003874 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 935298003875 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 935298003876 mycothione reductase; Reviewed; Region: PRK07846 935298003877 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935298003878 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935298003879 cobyric acid synthase; Provisional; Region: PRK00784 935298003880 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 935298003881 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 935298003882 catalytic triad [active] 935298003883 methionine aminopeptidase; Provisional; Region: PRK12318 935298003884 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 935298003885 active site 935298003886 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 935298003887 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935298003888 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 935298003889 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 935298003890 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 935298003891 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 935298003892 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 935298003893 active site 935298003894 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 935298003895 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 935298003896 putative substrate binding region [chemical binding]; other site 935298003897 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 935298003898 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 935298003899 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 935298003900 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 935298003901 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 935298003902 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 935298003903 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 935298003904 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 935298003905 ribosome recycling factor; Reviewed; Region: frr; PRK00083 935298003906 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 935298003907 hinge region; other site 935298003908 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 935298003909 putative nucleotide binding site [chemical binding]; other site 935298003910 uridine monophosphate binding site [chemical binding]; other site 935298003911 homohexameric interface [polypeptide binding]; other site 935298003912 elongation factor Ts; Provisional; Region: tsf; PRK09377 935298003913 UBA/TS-N domain; Region: UBA; pfam00627 935298003914 Elongation factor TS; Region: EF_TS; pfam00889 935298003915 Elongation factor TS; Region: EF_TS; pfam00889 935298003916 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 935298003917 rRNA interaction site [nucleotide binding]; other site 935298003918 S8 interaction site; other site 935298003919 putative laminin-1 binding site; other site 935298003920 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 935298003921 Peptidase family M23; Region: Peptidase_M23; pfam01551 935298003922 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 935298003923 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 935298003924 active site 935298003925 DNA binding site [nucleotide binding] 935298003926 Int/Topo IB signature motif; other site 935298003927 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 935298003928 DNA protecting protein DprA; Region: dprA; TIGR00732 935298003929 hypothetical protein; Reviewed; Region: PRK12497 935298003930 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 935298003931 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 935298003932 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 935298003933 Walker A motif; other site 935298003934 ATP binding site [chemical binding]; other site 935298003935 Walker B motif; other site 935298003936 arginine finger; other site 935298003937 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 935298003938 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 935298003939 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 935298003940 RNA/DNA hybrid binding site [nucleotide binding]; other site 935298003941 active site 935298003942 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 935298003943 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 935298003944 Catalytic site [active] 935298003945 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 935298003946 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 935298003947 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 935298003948 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 935298003949 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 935298003950 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 935298003951 RNA binding site [nucleotide binding]; other site 935298003952 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 935298003953 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 935298003954 active site 935298003955 P-loop; other site 935298003956 phosphorylation site [posttranslational modification] 935298003957 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 935298003958 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 935298003959 active site 935298003960 phosphorylation site [posttranslational modification] 935298003961 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 935298003962 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 935298003963 RimM N-terminal domain; Region: RimM; pfam01782 935298003964 PRC-barrel domain; Region: PRC; pfam05239 935298003965 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 935298003966 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 935298003967 signal recognition particle protein; Provisional; Region: PRK10867 935298003968 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 935298003969 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 935298003970 P loop; other site 935298003971 GTP binding site [chemical binding]; other site 935298003972 Signal peptide binding domain; Region: SRP_SPB; pfam02978 935298003973 PII uridylyl-transferase; Provisional; Region: glnD; PRK00227 935298003974 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935298003975 metal binding triad; other site 935298003976 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935298003977 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935298003978 Zn2+ binding site [ion binding]; other site 935298003979 Mg2+ binding site [ion binding]; other site 935298003980 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 935298003981 Nitrogen regulatory protein P-II; Region: P-II; smart00938 935298003982 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 935298003983 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 935298003984 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 935298003985 Acylphosphatase; Region: Acylphosphatase; cl00551 935298003986 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 935298003987 amino acid carrier protein; Region: agcS; TIGR00835 935298003988 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 935298003989 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 935298003990 DNA binding site [nucleotide binding] 935298003991 catalytic residue [active] 935298003992 H2TH interface [polypeptide binding]; other site 935298003993 putative catalytic residues [active] 935298003994 turnover-facilitating residue; other site 935298003995 intercalation triad [nucleotide binding]; other site 935298003996 8OG recognition residue [nucleotide binding]; other site 935298003997 putative reading head residues; other site 935298003998 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 935298003999 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935298004000 ribonuclease III; Reviewed; Region: rnc; PRK00102 935298004001 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 935298004002 dimerization interface [polypeptide binding]; other site 935298004003 active site 935298004004 metal binding site [ion binding]; metal-binding site 935298004005 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 935298004006 dsRNA binding site [nucleotide binding]; other site 935298004007 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 935298004008 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 935298004009 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 935298004010 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 935298004011 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 935298004012 hexamer interface [polypeptide binding]; other site 935298004013 ligand binding site [chemical binding]; other site 935298004014 putative active site [active] 935298004015 NAD(P) binding site [chemical binding]; other site 935298004016 glutamate dehydrogenase; Provisional; Region: PRK09414 935298004017 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 935298004018 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 935298004019 NAD(P) binding site [chemical binding]; other site 935298004020 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 935298004021 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 935298004022 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 935298004023 nucleotide binding site/active site [active] 935298004024 HIT family signature motif; other site 935298004025 catalytic residue [active] 935298004026 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 935298004027 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 935298004028 metal binding site [ion binding]; metal-binding site 935298004029 putative dimer interface [polypeptide binding]; other site 935298004030 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 935298004031 homodimer interface [polypeptide binding]; other site 935298004032 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 935298004033 active site pocket [active] 935298004034 Electron transfer DM13; Region: DM13; pfam10517 935298004035 pyruvate kinase; Provisional; Region: PRK06247 935298004036 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 935298004037 domain interfaces; other site 935298004038 active site 935298004039 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 935298004040 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 935298004041 active site 935298004042 ribulose/triose binding site [chemical binding]; other site 935298004043 phosphate binding site [ion binding]; other site 935298004044 substrate (anthranilate) binding pocket [chemical binding]; other site 935298004045 product (indole) binding pocket [chemical binding]; other site 935298004046 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; pfam09534 935298004047 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 935298004048 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 935298004049 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 935298004050 substrate binding site [chemical binding]; other site 935298004051 glutamase interaction surface [polypeptide binding]; other site 935298004052 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 935298004053 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 935298004054 active site 935298004055 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 935298004056 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 935298004057 catalytic residues [active] 935298004058 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 935298004059 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 935298004060 putative active site [active] 935298004061 oxyanion strand; other site 935298004062 catalytic triad [active] 935298004063 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 935298004064 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935298004065 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 935298004066 putative active site pocket [active] 935298004067 4-fold oligomerization interface [polypeptide binding]; other site 935298004068 metal binding residues [ion binding]; metal-binding site 935298004069 3-fold/trimer interface [polypeptide binding]; other site 935298004070 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 935298004071 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 935298004072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298004073 homodimer interface [polypeptide binding]; other site 935298004074 catalytic residue [active] 935298004075 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 935298004076 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 935298004077 NAD binding site [chemical binding]; other site 935298004078 dimerization interface [polypeptide binding]; other site 935298004079 product binding site; other site 935298004080 substrate binding site [chemical binding]; other site 935298004081 zinc binding site [ion binding]; other site 935298004082 catalytic residues [active] 935298004083 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 935298004084 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 935298004085 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298004086 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 935298004087 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 935298004088 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 935298004089 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 935298004090 active site 935298004091 catalytic site [active] 935298004092 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 935298004093 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 935298004094 active site 935298004095 catalytic site [active] 935298004096 substrate binding site [chemical binding]; other site 935298004097 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 935298004098 Dimer interface [polypeptide binding]; other site 935298004099 BRCT sequence motif; other site 935298004100 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 935298004101 synthetase active site [active] 935298004102 NTP binding site [chemical binding]; other site 935298004103 metal binding site [ion binding]; metal-binding site 935298004104 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 935298004105 RNA binding surface [nucleotide binding]; other site 935298004106 Uncharacterized conserved protein [Function unknown]; Region: COG1739 935298004107 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 935298004108 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 935298004109 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 935298004110 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 935298004111 active site 935298004112 PHP Thumb interface [polypeptide binding]; other site 935298004113 metal binding site [ion binding]; metal-binding site 935298004114 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 935298004115 generic binding surface I; other site 935298004116 generic binding surface II; other site 935298004117 Predicted permeases [General function prediction only]; Region: RarD; COG2962 935298004118 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935298004119 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 935298004120 RNA binding surface [nucleotide binding]; other site 935298004121 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935298004122 active site 935298004123 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 935298004124 lipoprotein signal peptidase; Provisional; Region: PRK14787 935298004125 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 935298004126 active site 935298004127 homotetramer interface [polypeptide binding]; other site 935298004128 homodimer interface [polypeptide binding]; other site 935298004129 DNA polymerase IV; Provisional; Region: PRK03348 935298004130 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 935298004131 active site 935298004132 DNA binding site [nucleotide binding] 935298004133 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 935298004134 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 935298004135 HIGH motif; other site 935298004136 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 935298004137 active site 935298004138 KMSKS motif; other site 935298004139 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 935298004140 tRNA binding surface [nucleotide binding]; other site 935298004141 anticodon binding site; other site 935298004142 DivIVA protein; Region: DivIVA; pfam05103 935298004143 DivIVA domain; Region: DivI1A_domain; TIGR03544 935298004144 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 935298004145 YGGT family; Region: YGGT; pfam02325 935298004146 Protein of unknown function (DUF552); Region: DUF552; cl00775 935298004147 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 935298004148 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 935298004149 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 935298004150 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 935298004151 nucleotide binding site [chemical binding]; other site 935298004152 SulA interaction site; other site 935298004153 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 935298004154 Cell division protein FtsQ; Region: FtsQ; pfam03799 935298004155 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 935298004156 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935298004157 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935298004158 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935298004159 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 935298004160 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 935298004161 homodimer interface [polypeptide binding]; other site 935298004162 active site 935298004163 cell division protein FtsW; Region: ftsW; TIGR02614 935298004164 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00141 935298004165 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935298004166 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 935298004167 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 935298004168 Mg++ binding site [ion binding]; other site 935298004169 putative catalytic motif [active] 935298004170 putative substrate binding site [chemical binding]; other site 935298004171 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 935298004172 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935298004173 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935298004174 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935298004175 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 935298004176 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935298004177 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935298004178 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935298004179 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 935298004180 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 935298004181 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935298004182 MraW methylase family; Region: Methyltransf_5; cl17771 935298004183 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 935298004184 cell division protein MraZ; Reviewed; Region: PRK00326 935298004185 MraZ protein; Region: MraZ; pfam02381 935298004186 MraZ protein; Region: MraZ; pfam02381 935298004187 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 935298004188 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 935298004189 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 935298004190 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 935298004191 FAD binding site [chemical binding]; other site 935298004192 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 935298004193 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 935298004194 substrate binding pocket [chemical binding]; other site 935298004195 chain length determination region; other site 935298004196 substrate-Mg2+ binding site; other site 935298004197 catalytic residues [active] 935298004198 aspartate-rich region 1; other site 935298004199 active site lid residues [active] 935298004200 aspartate-rich region 2; other site 935298004201 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 935298004202 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 935298004203 Catalytic domain of Protein Kinases; Region: PKc; cd00180 935298004204 active site 935298004205 ATP binding site [chemical binding]; other site 935298004206 substrate binding site [chemical binding]; other site 935298004207 activation loop (A-loop); other site 935298004208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 935298004209 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 935298004210 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 935298004211 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 935298004212 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 935298004213 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 935298004214 Predicted membrane protein [Function unknown]; Region: COG4763 935298004215 Acyltransferase family; Region: Acyl_transf_3; pfam01757 935298004216 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 935298004217 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935298004218 putative acyl-acceptor binding pocket; other site 935298004219 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935298004220 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935298004221 nucleotide binding site [chemical binding]; other site 935298004222 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 935298004223 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935298004224 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935298004225 NlpC/P60 family; Region: NLPC_P60; pfam00877 935298004226 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935298004227 NlpC/P60 family; Region: NLPC_P60; pfam00877 935298004228 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 935298004229 heme bH binding site [chemical binding]; other site 935298004230 intrachain domain interface; other site 935298004231 heme bL binding site [chemical binding]; other site 935298004232 interchain domain interface [polypeptide binding]; other site 935298004233 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 935298004234 Qo binding site; other site 935298004235 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 935298004236 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 935298004237 iron-sulfur cluster [ion binding]; other site 935298004238 [2Fe-2S] cluster binding site [ion binding]; other site 935298004239 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 935298004240 Cytochrome c; Region: Cytochrom_C; pfam00034 935298004241 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 935298004242 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 935298004243 Subunit I/III interface [polypeptide binding]; other site 935298004244 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 935298004245 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 935298004246 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 935298004247 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 935298004248 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 935298004249 active site 935298004250 dimer interface [polypeptide binding]; other site 935298004251 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 935298004252 Ligand Binding Site [chemical binding]; other site 935298004253 Molecular Tunnel; other site 935298004254 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 935298004255 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 935298004256 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 935298004257 homotrimer interface [polypeptide binding]; other site 935298004258 Walker A motif; other site 935298004259 GTP binding site [chemical binding]; other site 935298004260 Walker B motif; other site 935298004261 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 935298004262 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 935298004263 putative dimer interface [polypeptide binding]; other site 935298004264 active site pocket [active] 935298004265 putative cataytic base [active] 935298004266 cobalamin synthase; Reviewed; Region: cobS; PRK00235 935298004267 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 935298004268 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 935298004269 homodimer interface [polypeptide binding]; other site 935298004270 substrate-cofactor binding pocket; other site 935298004271 catalytic residue [active] 935298004272 multifunctional aminopeptidase A; Provisional; Region: PRK00913 935298004273 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 935298004274 interface (dimer of trimers) [polypeptide binding]; other site 935298004275 Substrate-binding/catalytic site; other site 935298004276 Zn-binding sites [ion binding]; other site 935298004277 glycine dehydrogenase; Provisional; Region: PRK05367 935298004278 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 935298004279 tetramer interface [polypeptide binding]; other site 935298004280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298004281 catalytic residue [active] 935298004282 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 935298004283 tetramer interface [polypeptide binding]; other site 935298004284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298004285 catalytic residue [active] 935298004286 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 935298004287 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 935298004288 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 935298004289 lipoyl attachment site [posttranslational modification]; other site 935298004290 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 935298004291 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935298004292 active site 935298004293 lipoate-protein ligase B; Provisional; Region: PRK14345 935298004294 lipoyl synthase; Provisional; Region: PRK05481 935298004295 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 935298004296 FeS/SAM binding site; other site 935298004297 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 935298004298 RDD family; Region: RDD; pfam06271 935298004299 glutamine synthetase, type I; Region: GlnA; TIGR00653 935298004300 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 935298004301 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 935298004302 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 935298004303 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 935298004304 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 935298004305 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 935298004306 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 935298004307 DNA methylase; Region: N6_N4_Mtase; pfam01555 935298004308 DNA methylase; Region: N6_N4_Mtase; cl17433 935298004309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298004310 AAA domain; Region: AAA_21; pfam13304 935298004311 Walker A/P-loop; other site 935298004312 ATP binding site [chemical binding]; other site 935298004313 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 935298004314 putative active site [active] 935298004315 putative metal-binding site [ion binding]; other site 935298004316 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 935298004317 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 935298004318 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 935298004319 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 935298004320 HsdM N-terminal domain; Region: HsdM_N; pfam12161 935298004321 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 935298004322 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935298004323 Walker A/P-loop; other site 935298004324 ATP binding site [chemical binding]; other site 935298004325 Q-loop/lid; other site 935298004326 ABC transporter signature motif; other site 935298004327 Walker B; other site 935298004328 D-loop; other site 935298004329 H-loop/switch region; other site 935298004330 Htaa; Region: HtaA; pfam04213 935298004331 Htaa; Region: HtaA; pfam04213 935298004332 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 935298004333 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 935298004334 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 935298004335 IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]; Region: GuaB; COG0516 935298004336 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 935298004337 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 935298004338 active site 935298004339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 935298004340 Predicted permease [General function prediction only]; Region: COG2056 935298004341 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 935298004342 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 935298004343 nudix motif; other site 935298004344 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 935298004345 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 935298004346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298004347 catalytic residue [active] 935298004348 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 935298004349 active site 935298004350 catalytic site [active] 935298004351 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 935298004352 heme binding pocket [chemical binding]; other site 935298004353 heme ligand [chemical binding]; other site 935298004354 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 935298004355 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935298004356 metal binding triad; other site 935298004357 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935298004358 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935298004359 metal binding triad; other site 935298004360 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935298004361 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 935298004362 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 935298004363 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 935298004364 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 935298004365 putative active site; other site 935298004366 putative metal binding residues [ion binding]; other site 935298004367 signature motif; other site 935298004368 putative triphosphate binding site [ion binding]; other site 935298004369 CHAD domain; Region: CHAD; pfam05235 935298004370 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 935298004371 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 935298004372 RNB domain; Region: RNB; pfam00773 935298004373 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 935298004374 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 935298004375 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 935298004376 RNA/DNA hybrid binding site [nucleotide binding]; other site 935298004377 active site 935298004378 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 935298004379 catalytic core [active] 935298004380 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 935298004381 Putative zinc ribbon domain; Region: DUF164; pfam02591 935298004382 Uncharacterized conserved protein [Function unknown]; Region: COG0327 935298004383 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 935298004384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 935298004385 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 935298004386 hypothetical protein; Provisional; Region: PRK07908 935298004387 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 935298004388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298004389 homodimer interface [polypeptide binding]; other site 935298004390 catalytic residue [active] 935298004391 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 935298004392 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 935298004393 motif II; other site 935298004394 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 935298004395 Low molecular weight phosphatase family; Region: LMWPc; cd00115 935298004396 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 935298004397 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 935298004398 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 935298004399 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 935298004400 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 935298004401 dimer interface [polypeptide binding]; other site 935298004402 TPP-binding site [chemical binding]; other site 935298004403 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 935298004404 Serine hydrolase; Region: Ser_hydrolase; cl17834 935298004405 Phosphopantetheine attachment site; Region: PP-binding; cl09936 935298004406 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 935298004407 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 935298004408 active site 935298004409 motif I; other site 935298004410 motif II; other site 935298004411 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 935298004412 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 935298004413 Beta-lactamase; Region: Beta-lactamase; pfam00144 935298004414 Predicted membrane protein [Function unknown]; Region: COG2860 935298004415 UPF0126 domain; Region: UPF0126; pfam03458 935298004416 UPF0126 domain; Region: UPF0126; pfam03458 935298004417 DNA primase; Validated; Region: dnaG; PRK05667 935298004418 CHC2 zinc finger; Region: zf-CHC2; pfam01807 935298004419 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 935298004420 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 935298004421 active site 935298004422 metal binding site [ion binding]; metal-binding site 935298004423 interdomain interaction site; other site 935298004424 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 935298004425 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 935298004426 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 935298004427 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 935298004428 glutaminase active site [active] 935298004429 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 935298004430 dimer interface [polypeptide binding]; other site 935298004431 active site 935298004432 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 935298004433 dimer interface [polypeptide binding]; other site 935298004434 active site 935298004435 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 935298004436 active site 935298004437 barstar interaction site; other site 935298004438 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 935298004439 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935298004440 Zn2+ binding site [ion binding]; other site 935298004441 Mg2+ binding site [ion binding]; other site 935298004442 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 935298004443 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 935298004444 putative active site [active] 935298004445 Repair protein; Region: Repair_PSII; pfam04536 935298004446 glycyl-tRNA synthetase; Provisional; Region: PRK04173 935298004447 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 935298004448 motif 1; other site 935298004449 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 935298004450 active site 935298004451 motif 2; other site 935298004452 motif 3; other site 935298004453 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 935298004454 anticodon binding site; other site 935298004455 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 935298004456 putative DNA binding site [nucleotide binding]; other site 935298004457 putative Zn2+ binding site [ion binding]; other site 935298004458 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 935298004459 metal binding site 2 [ion binding]; metal-binding site 935298004460 putative DNA binding helix; other site 935298004461 metal binding site 1 [ion binding]; metal-binding site 935298004462 dimer interface [polypeptide binding]; other site 935298004463 structural Zn2+ binding site [ion binding]; other site 935298004464 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 935298004465 diiron binding motif [ion binding]; other site 935298004466 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 935298004467 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 935298004468 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 935298004469 putative FPP binding hydrophobic cleft; other site 935298004470 dimer interface [polypeptide binding]; other site 935298004471 putative IPP diphosphate binding site; other site 935298004472 Recombination protein O N terminal; Region: RecO_N; pfam11967 935298004473 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 935298004474 Recombination protein O C terminal; Region: RecO_C; pfam02565 935298004475 GTPase Era; Reviewed; Region: era; PRK00089 935298004476 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 935298004477 G1 box; other site 935298004478 GTP/Mg2+ binding site [chemical binding]; other site 935298004479 Switch I region; other site 935298004480 G2 box; other site 935298004481 Switch II region; other site 935298004482 G3 box; other site 935298004483 G4 box; other site 935298004484 G5 box; other site 935298004485 KH domain; Region: KH_2; pfam07650 935298004486 pyridoxamine kinase; Validated; Region: PRK05756 935298004487 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 935298004488 dimer interface [polypeptide binding]; other site 935298004489 pyridoxal binding site [chemical binding]; other site 935298004490 ATP binding site [chemical binding]; other site 935298004491 Domain of unknown function DUF21; Region: DUF21; pfam01595 935298004492 FOG: CBS domain [General function prediction only]; Region: COG0517 935298004493 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 935298004494 Transporter associated domain; Region: CorC_HlyC; smart01091 935298004495 metal-binding heat shock protein; Provisional; Region: PRK00016 935298004496 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 935298004497 PhoH-like protein; Region: PhoH; pfam02562 935298004498 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 935298004499 RNA methyltransferase, RsmE family; Region: TIGR00046 935298004500 chaperone protein DnaJ; Provisional; Region: PRK14278 935298004501 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 935298004502 HSP70 interaction site [polypeptide binding]; other site 935298004503 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 935298004504 Zn binding sites [ion binding]; other site 935298004505 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 935298004506 dimer interface [polypeptide binding]; other site 935298004507 coproporphyrinogen III oxidase; Validated; Region: PRK05628 935298004508 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 935298004509 FeS/SAM binding site; other site 935298004510 HemN C-terminal domain; Region: HemN_C; pfam06969 935298004511 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 935298004512 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 935298004513 acyl-activating enzyme (AAE) consensus motif; other site 935298004514 putative AMP binding site [chemical binding]; other site 935298004515 putative active site [active] 935298004516 putative CoA binding site [chemical binding]; other site 935298004517 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 935298004518 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 935298004519 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 935298004520 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 935298004521 active site 935298004522 Zn binding site [ion binding]; other site 935298004523 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 935298004524 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 935298004525 substrate binding pocket [chemical binding]; other site 935298004526 catalytic triad [active] 935298004527 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 935298004528 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 935298004529 active site 935298004530 metal binding site [ion binding]; metal-binding site 935298004531 nudix motif; other site 935298004532 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 935298004533 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 935298004534 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 935298004535 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 935298004536 active site 935298004537 BCCT family transporter; Region: BCCT; pfam02028 935298004538 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 935298004539 Predicted permeases [General function prediction only]; Region: COG0679 935298004540 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935298004541 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 935298004542 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935298004543 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 935298004544 dimer interface [polypeptide binding]; other site 935298004545 conserved gate region; other site 935298004546 putative PBP binding loops; other site 935298004547 ABC-ATPase subunit interface; other site 935298004548 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 935298004549 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 935298004550 dimer interface [polypeptide binding]; other site 935298004551 conserved gate region; other site 935298004552 putative PBP binding loops; other site 935298004553 ABC-ATPase subunit interface; other site 935298004554 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 935298004555 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298004556 Walker A/P-loop; other site 935298004557 ATP binding site [chemical binding]; other site 935298004558 Q-loop/lid; other site 935298004559 ABC transporter signature motif; other site 935298004560 Walker B; other site 935298004561 D-loop; other site 935298004562 H-loop/switch region; other site 935298004563 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935298004564 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298004565 Walker A/P-loop; other site 935298004566 ATP binding site [chemical binding]; other site 935298004567 Q-loop/lid; other site 935298004568 ABC transporter signature motif; other site 935298004569 Walker B; other site 935298004570 D-loop; other site 935298004571 H-loop/switch region; other site 935298004572 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935298004573 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 935298004574 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 935298004575 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935298004576 catalytic residue [active] 935298004577 Sulphur transport; Region: Sulf_transp; pfam04143 935298004578 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 935298004579 CPxP motif; other site 935298004580 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935298004581 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 935298004582 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 935298004583 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 935298004584 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935298004585 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 935298004586 putative substrate translocation pore; other site 935298004587 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298004588 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 935298004589 Walker A/P-loop; other site 935298004590 ATP binding site [chemical binding]; other site 935298004591 Q-loop/lid; other site 935298004592 ABC transporter signature motif; other site 935298004593 Walker B; other site 935298004594 D-loop; other site 935298004595 H-loop/switch region; other site 935298004596 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 935298004597 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298004598 Walker A/P-loop; other site 935298004599 ATP binding site [chemical binding]; other site 935298004600 Q-loop/lid; other site 935298004601 ABC transporter signature motif; other site 935298004602 Walker B; other site 935298004603 D-loop; other site 935298004604 H-loop/switch region; other site 935298004605 GTP-binding protein LepA; Provisional; Region: PRK05433 935298004606 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 935298004607 G1 box; other site 935298004608 putative GEF interaction site [polypeptide binding]; other site 935298004609 GTP/Mg2+ binding site [chemical binding]; other site 935298004610 Switch I region; other site 935298004611 G2 box; other site 935298004612 G3 box; other site 935298004613 Switch II region; other site 935298004614 G4 box; other site 935298004615 G5 box; other site 935298004616 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 935298004617 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 935298004618 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 935298004619 PemK-like protein; Region: PemK; pfam02452 935298004620 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 935298004621 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 935298004622 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 935298004623 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 935298004624 hypothetical protein; Validated; Region: PRK05629 935298004625 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 935298004626 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 935298004627 Competence protein; Region: Competence; pfam03772 935298004628 comEA protein; Region: comE; TIGR01259 935298004629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 935298004630 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 935298004631 Oligomerisation domain; Region: Oligomerisation; pfam02410 935298004632 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 935298004633 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 935298004634 active site 935298004635 (T/H)XGH motif; other site 935298004636 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 935298004637 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 935298004638 putative catalytic cysteine [active] 935298004639 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_2; cd12159 935298004640 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 935298004641 putative ligand binding site [chemical binding]; other site 935298004642 putative NAD binding site [chemical binding]; other site 935298004643 catalytic site [active] 935298004644 Protein of unknown function (DUF454); Region: DUF454; cl01063 935298004645 Predicted permease [General function prediction only]; Region: COG2985 935298004646 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 935298004647 TrkA-C domain; Region: TrkA_C; pfam02080 935298004648 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 935298004649 gamma-glutamyl kinase; Provisional; Region: PRK05429 935298004650 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 935298004651 nucleotide binding site [chemical binding]; other site 935298004652 homotetrameric interface [polypeptide binding]; other site 935298004653 putative phosphate binding site [ion binding]; other site 935298004654 putative allosteric binding site; other site 935298004655 PUA domain; Region: PUA; pfam01472 935298004656 GTPase CgtA; Reviewed; Region: obgE; PRK12296 935298004657 GTP1/OBG; Region: GTP1_OBG; pfam01018 935298004658 Obg GTPase; Region: Obg; cd01898 935298004659 G1 box; other site 935298004660 GTP/Mg2+ binding site [chemical binding]; other site 935298004661 Switch I region; other site 935298004662 G2 box; other site 935298004663 G3 box; other site 935298004664 Switch II region; other site 935298004665 G4 box; other site 935298004666 G5 box; other site 935298004667 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 935298004668 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 935298004669 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 935298004670 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 935298004671 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935298004672 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 935298004673 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 935298004674 homodimer interface [polypeptide binding]; other site 935298004675 oligonucleotide binding site [chemical binding]; other site 935298004676 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 935298004677 active site 935298004678 multimer interface [polypeptide binding]; other site 935298004679 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 935298004680 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 935298004681 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 935298004682 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 935298004683 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935298004684 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935298004685 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935298004686 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 935298004687 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935298004688 active site 935298004689 HIGH motif; other site 935298004690 nucleotide binding site [chemical binding]; other site 935298004691 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 935298004692 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 935298004693 active site 935298004694 KMSKS motif; other site 935298004695 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 935298004696 tRNA binding surface [nucleotide binding]; other site 935298004697 anticodon binding site; other site 935298004698 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 935298004699 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 935298004700 malate dehydrogenase; Provisional; Region: PRK05442 935298004701 NAD(P) binding site [chemical binding]; other site 935298004702 dimer interface [polypeptide binding]; other site 935298004703 malate binding site [chemical binding]; other site 935298004704 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935298004705 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298004706 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 935298004707 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 935298004708 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 935298004709 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 935298004710 Walker A motif; other site 935298004711 ATP binding site [chemical binding]; other site 935298004712 Walker B motif; other site 935298004713 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 935298004714 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 935298004715 Glutamine amidotransferase class-I; Region: GATase; pfam00117 935298004716 glutamine binding [chemical binding]; other site 935298004717 catalytic triad [active] 935298004718 hypothetical protein; Validated; Region: PRK09070 935298004719 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 935298004720 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 935298004721 Aminotransferase class IV; Region: Aminotran_4; pfam01063 935298004722 substrate-cofactor binding pocket; other site 935298004723 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 935298004724 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 935298004725 oligomer interface [polypeptide binding]; other site 935298004726 active site residues [active] 935298004727 Clp protease; Region: CLP_protease; pfam00574 935298004728 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 935298004729 oligomer interface [polypeptide binding]; other site 935298004730 active site residues [active] 935298004731 trigger factor; Provisional; Region: tig; PRK01490 935298004732 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935298004733 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 935298004734 Pirin-related protein [General function prediction only]; Region: COG1741 935298004735 Pirin; Region: Pirin; pfam02678 935298004736 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 935298004737 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 935298004738 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 935298004739 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 935298004740 catalytic residues [active] 935298004741 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935298004742 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935298004743 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 935298004744 apolar tunnel; other site 935298004745 heme binding site [chemical binding]; other site 935298004746 dimerization interface [polypeptide binding]; other site 935298004747 Protein of unknown function, DUF606; Region: DUF606; pfam04657 935298004748 Protein of unknown function, DUF606; Region: DUF606; pfam04657 935298004749 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 935298004750 active site 935298004751 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 935298004752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298004753 Walker A/P-loop; other site 935298004754 ATP binding site [chemical binding]; other site 935298004755 Q-loop/lid; other site 935298004756 ABC transporter signature motif; other site 935298004757 Walker B; other site 935298004758 D-loop; other site 935298004759 H-loop/switch region; other site 935298004760 ABC transporter; Region: ABC_tran_2; pfam12848 935298004761 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935298004762 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 935298004763 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 935298004764 dimer interface [polypeptide binding]; other site 935298004765 ssDNA binding site [nucleotide binding]; other site 935298004766 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935298004767 YcaO-like family; Region: YcaO; pfam02624 935298004768 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 935298004769 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 935298004770 FMN binding site [chemical binding]; other site 935298004771 dimer interface [polypeptide binding]; other site 935298004772 Nitroreductase family; Region: Nitroreductase; pfam00881 935298004773 dimer interface [polypeptide binding]; other site 935298004774 SpaB C-terminal domain; Region: SpaB_C; pfam14028 935298004775 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 935298004776 YcaO-like family; Region: YcaO; pfam02624 935298004777 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 935298004778 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 935298004779 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935298004780 Walker A/P-loop; other site 935298004781 ATP binding site [chemical binding]; other site 935298004782 Q-loop/lid; other site 935298004783 ABC transporter signature motif; other site 935298004784 Walker B; other site 935298004785 D-loop; other site 935298004786 H-loop/switch region; other site 935298004787 Copper resistance protein D; Region: CopD; pfam05425 935298004788 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 935298004789 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 935298004790 Carbon starvation protein CstA; Region: CstA; pfam02554 935298004791 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 935298004792 Protein of unknown function (DUF466); Region: DUF466; pfam04328 935298004793 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 935298004794 active site 935298004795 catalytic triad [active] 935298004796 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 935298004797 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 935298004798 NADP binding site [chemical binding]; other site 935298004799 dimer interface [polypeptide binding]; other site 935298004800 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 935298004801 classical (c) SDRs; Region: SDR_c; cd05233 935298004802 NAD(P) binding site [chemical binding]; other site 935298004803 active site 935298004804 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 935298004805 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 935298004806 catalytic site [active] 935298004807 putative active site [active] 935298004808 putative substrate binding site [chemical binding]; other site 935298004809 dimer interface [polypeptide binding]; other site 935298004810 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 935298004811 N-acetylneuraminate lyase; Provisional; Region: PRK04147 935298004812 inhibitor site; inhibition site 935298004813 active site 935298004814 dimer interface [polypeptide binding]; other site 935298004815 catalytic residue [active] 935298004816 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 935298004817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 935298004818 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 935298004819 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935298004820 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 935298004821 Prostaglandin dehydrogenases; Region: PGDH; cd05288 935298004822 NAD(P) binding site [chemical binding]; other site 935298004823 substrate binding site [chemical binding]; other site 935298004824 dimer interface [polypeptide binding]; other site 935298004825 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 935298004826 Isochorismatase family; Region: Isochorismatase; pfam00857 935298004827 catalytic triad [active] 935298004828 metal binding site [ion binding]; metal-binding site 935298004829 conserved cis-peptide bond; other site 935298004830 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 935298004831 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 935298004832 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 935298004833 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 935298004834 catalytic triad [active] 935298004835 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935298004836 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298004837 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 935298004838 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 935298004839 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 935298004840 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 935298004841 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 935298004842 phosphate binding site [ion binding]; other site 935298004843 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 935298004844 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 935298004845 active site 2 [active] 935298004846 active site 1 [active] 935298004847 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 935298004848 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 935298004849 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 935298004850 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 935298004851 putative NAD(P) binding site [chemical binding]; other site 935298004852 active site 935298004853 "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 935298004854 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 935298004855 active site 935298004856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 935298004857 Histidine kinase; Region: HisKA_3; pfam07730 935298004858 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 935298004859 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935298004860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298004861 active site 935298004862 phosphorylation site [posttranslational modification] 935298004863 intermolecular recognition site; other site 935298004864 dimerization interface [polypeptide binding]; other site 935298004865 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 935298004866 DNA binding residues [nucleotide binding] 935298004867 dimerization interface [polypeptide binding]; other site 935298004868 Protein of unknown function (DUF418); Region: DUF418; pfam04235 935298004869 CAAX protease self-immunity; Region: Abi; pfam02517 935298004870 Glucitol operon activator protein (GutM); Region: GutM; cl01890 935298004871 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 935298004872 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 935298004873 active site 935298004874 dimerization interface [polypeptide binding]; other site 935298004875 ribonuclease PH; Reviewed; Region: rph; PRK00173 935298004876 Ribonuclease PH; Region: RNase_PH_bact; cd11362 935298004877 hexamer interface [polypeptide binding]; other site 935298004878 active site 935298004879 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 935298004880 glutamate racemase; Provisional; Region: PRK00865 935298004881 Rhomboid family; Region: Rhomboid; pfam01694 935298004882 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 935298004883 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 935298004884 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 935298004885 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 935298004886 active site 935298004887 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 935298004888 DEAD/DEAH box helicase; Region: DEAD; pfam00270 935298004889 ATP binding site [chemical binding]; other site 935298004890 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 935298004891 putative Mg++ binding site [ion binding]; other site 935298004892 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 935298004893 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935298004894 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 935298004895 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 935298004896 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 935298004897 phosphoserine phosphatase SerB; Region: serB; TIGR00338 935298004898 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 935298004899 motif II; other site 935298004900 Winged helix-turn helix; Region: HTH_29; pfam13551 935298004901 Helix-turn-helix domain; Region: HTH_28; pfam13518 935298004902 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 935298004903 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 935298004904 D-pathway; other site 935298004905 Putative ubiquinol binding site [chemical binding]; other site 935298004906 Low-spin heme (heme b) binding site [chemical binding]; other site 935298004907 Putative water exit pathway; other site 935298004908 Binuclear center (heme o3/CuB) [ion binding]; other site 935298004909 K-pathway; other site 935298004910 Putative proton exit pathway; other site 935298004911 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 935298004912 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 935298004913 dimer interface [polypeptide binding]; other site 935298004914 putative radical transfer pathway; other site 935298004915 diiron center [ion binding]; other site 935298004916 tyrosyl radical; other site 935298004917 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 935298004918 Ferritin-like domain; Region: Ferritin; pfam00210 935298004919 ferroxidase diiron center [ion binding]; other site 935298004920 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 935298004921 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 935298004922 Class I ribonucleotide reductase; Region: RNR_I; cd01679 935298004923 active site 935298004924 dimer interface [polypeptide binding]; other site 935298004925 catalytic residues [active] 935298004926 effector binding site; other site 935298004927 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 935298004928 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 935298004929 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 935298004930 catalytic residues [active] 935298004931 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 935298004932 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 935298004933 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 935298004934 homodimer interface [polypeptide binding]; other site 935298004935 NAD binding pocket [chemical binding]; other site 935298004936 ATP binding pocket [chemical binding]; other site 935298004937 Mg binding site [ion binding]; other site 935298004938 active-site loop [active] 935298004939 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 935298004940 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 935298004941 dimerization interface [polypeptide binding]; other site 935298004942 putative DNA binding site [nucleotide binding]; other site 935298004943 putative Zn2+ binding site [ion binding]; other site 935298004944 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 935298004945 Thioredoxin; Region: Thioredoxin_4; cl17273 935298004946 Predicted membrane protein [Function unknown]; Region: COG2259 935298004947 phosphoglucomutase; Validated; Region: PRK07564 935298004948 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 935298004949 active site 935298004950 substrate binding site [chemical binding]; other site 935298004951 metal binding site [ion binding]; metal-binding site 935298004952 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK00134 935298004953 CrcB-like protein; Region: CRCB; pfam02537 935298004954 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935298004955 FtsX-like permease family; Region: FtsX; pfam02687 935298004956 FtsX-like permease family; Region: FtsX; pfam02687 935298004957 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935298004958 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 935298004959 Walker A/P-loop; other site 935298004960 ATP binding site [chemical binding]; other site 935298004961 Q-loop/lid; other site 935298004962 ABC transporter signature motif; other site 935298004963 Walker B; other site 935298004964 D-loop; other site 935298004965 H-loop/switch region; other site 935298004966 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 935298004967 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 935298004968 hinge; other site 935298004969 active site 935298004970 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 935298004971 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935298004972 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 935298004973 DNA binding residues [nucleotide binding] 935298004974 dimerization interface [polypeptide binding]; other site 935298004975 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 935298004976 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 935298004977 dimer interface [polypeptide binding]; other site 935298004978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298004979 catalytic residue [active] 935298004980 serine O-acetyltransferase; Region: cysE; TIGR01172 935298004981 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 935298004982 trimer interface [polypeptide binding]; other site 935298004983 active site 935298004984 substrate binding site [chemical binding]; other site 935298004985 CoA binding site [chemical binding]; other site 935298004986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935298004987 Coenzyme A binding pocket [chemical binding]; other site 935298004988 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 935298004989 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 935298004990 putative active site [active] 935298004991 metal binding site [ion binding]; metal-binding site 935298004992 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 935298004993 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 935298004994 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 935298004995 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935298004996 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 935298004997 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298004998 Walker A/P-loop; other site 935298004999 ATP binding site [chemical binding]; other site 935298005000 Q-loop/lid; other site 935298005001 ABC transporter signature motif; other site 935298005002 Walker B; other site 935298005003 D-loop; other site 935298005004 H-loop/switch region; other site 935298005005 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 935298005006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298005007 Walker A/P-loop; other site 935298005008 ATP binding site [chemical binding]; other site 935298005009 Q-loop/lid; other site 935298005010 ABC transporter signature motif; other site 935298005011 Walker B; other site 935298005012 D-loop; other site 935298005013 H-loop/switch region; other site 935298005014 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 935298005015 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 935298005016 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 935298005017 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 935298005018 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 935298005019 FMN binding site [chemical binding]; other site 935298005020 active site 935298005021 catalytic residues [active] 935298005022 substrate binding site [chemical binding]; other site 935298005023 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 935298005024 PhoU domain; Region: PhoU; pfam01895 935298005025 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 935298005026 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 935298005027 Walker A/P-loop; other site 935298005028 ATP binding site [chemical binding]; other site 935298005029 Q-loop/lid; other site 935298005030 ABC transporter signature motif; other site 935298005031 Walker B; other site 935298005032 D-loop; other site 935298005033 H-loop/switch region; other site 935298005034 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 935298005035 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 935298005036 dimer interface [polypeptide binding]; other site 935298005037 conserved gate region; other site 935298005038 putative PBP binding loops; other site 935298005039 ABC-ATPase subunit interface; other site 935298005040 PBP superfamily domain; Region: PBP_like_2; cl17296 935298005041 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 935298005042 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935298005043 Coenzyme A binding pocket [chemical binding]; other site 935298005044 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 935298005045 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 935298005046 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 935298005047 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 935298005048 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 935298005049 heme-binding site [chemical binding]; other site 935298005050 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 935298005051 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 935298005052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298005053 catalytic residue [active] 935298005054 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 935298005055 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 935298005056 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 935298005057 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 935298005058 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 935298005059 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 935298005060 dimerization interface [polypeptide binding]; other site 935298005061 putative ATP binding site [chemical binding]; other site 935298005062 amidophosphoribosyltransferase; Provisional; Region: PRK07847 935298005063 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 935298005064 active site 935298005065 tetramer interface [polypeptide binding]; other site 935298005066 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298005067 active site 935298005068 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 935298005069 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 935298005070 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 935298005071 dimer interface [polypeptide binding]; other site 935298005072 putative radical transfer pathway; other site 935298005073 diiron center [ion binding]; other site 935298005074 tyrosyl radical; other site 935298005075 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 935298005076 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 935298005077 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 935298005078 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 935298005079 dimerization interface [polypeptide binding]; other site 935298005080 ATP binding site [chemical binding]; other site 935298005081 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 935298005082 dimerization interface [polypeptide binding]; other site 935298005083 ATP binding site [chemical binding]; other site 935298005084 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 935298005085 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 935298005086 putative active site [active] 935298005087 catalytic triad [active] 935298005088 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 935298005089 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 935298005090 catalytic residues [active] 935298005091 dimer interface [polypeptide binding]; other site 935298005092 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 935298005093 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 935298005094 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 935298005095 ATP binding site [chemical binding]; other site 935298005096 active site 935298005097 substrate binding site [chemical binding]; other site 935298005098 adenylosuccinate lyase; Region: purB; TIGR00928 935298005099 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 935298005100 tetramer interface [polypeptide binding]; other site 935298005101 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 935298005102 TrkA-N domain; Region: TrkA_N; pfam02254 935298005103 TrkA-C domain; Region: TrkA_C; pfam02080 935298005104 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 935298005105 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 935298005106 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 935298005107 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 935298005108 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 935298005109 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 935298005110 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 935298005111 nucleotide binding site/active site [active] 935298005112 HIT family signature motif; other site 935298005113 catalytic residue [active] 935298005114 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935298005115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935298005116 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 935298005117 dimerization interface [polypeptide binding]; other site 935298005118 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 935298005119 dimer interface [polypeptide binding]; other site 935298005120 phosphorylation site [posttranslational modification] 935298005121 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 935298005122 ATP binding site [chemical binding]; other site 935298005123 Mg2+ binding site [ion binding]; other site 935298005124 G-X-G motif; other site 935298005125 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935298005126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298005127 active site 935298005128 phosphorylation site [posttranslational modification] 935298005129 intermolecular recognition site; other site 935298005130 dimerization interface [polypeptide binding]; other site 935298005131 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 935298005132 DNA binding site [nucleotide binding] 935298005133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935298005134 Predicted esterase [General function prediction only]; Region: COG0627 935298005135 S-formylglutathione hydrolase; Region: PLN02442 935298005136 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 935298005137 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 935298005138 putative active site [active] 935298005139 pyruvate dehydrogenase; Provisional; Region: PRK06546 935298005140 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 935298005141 PYR/PP interface [polypeptide binding]; other site 935298005142 tetramer interface [polypeptide binding]; other site 935298005143 dimer interface [polypeptide binding]; other site 935298005144 TPP binding site [chemical binding]; other site 935298005145 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935298005146 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 935298005147 TPP-binding site [chemical binding]; other site 935298005148 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 935298005149 Uncharacterized conserved protein [Function unknown]; Region: COG3610 935298005150 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 935298005151 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 935298005152 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 935298005153 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 935298005154 active site 935298005155 homotetramer interface [polypeptide binding]; other site 935298005156 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 935298005157 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 935298005158 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935298005159 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935298005160 DNA binding site [nucleotide binding] 935298005161 domain linker motif; other site 935298005162 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 935298005163 putative dimerization interface [polypeptide binding]; other site 935298005164 putative ligand binding site [chemical binding]; other site 935298005165 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 935298005166 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 935298005167 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 935298005168 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935298005169 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 935298005170 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935298005171 active site 935298005172 HIGH motif; other site 935298005173 nucleotide binding site [chemical binding]; other site 935298005174 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 935298005175 KMSKS motif; other site 935298005176 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 935298005177 tRNA binding surface [nucleotide binding]; other site 935298005178 anticodon binding site; other site 935298005179 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 935298005180 homotrimer interaction site [polypeptide binding]; other site 935298005181 zinc binding site [ion binding]; other site 935298005182 CDP-binding sites; other site 935298005183 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 935298005184 substrate binding site; other site 935298005185 dimer interface; other site 935298005186 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 935298005187 DNA repair protein RadA; Provisional; Region: PRK11823 935298005188 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 935298005189 Walker A motif; other site 935298005190 ATP binding site [chemical binding]; other site 935298005191 Walker B motif; other site 935298005192 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 935298005193 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 935298005194 active site clefts [active] 935298005195 zinc binding site [ion binding]; other site 935298005196 dimer interface [polypeptide binding]; other site 935298005197 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935298005198 endonuclease III; Region: ENDO3c; smart00478 935298005199 minor groove reading motif; other site 935298005200 helix-hairpin-helix signature motif; other site 935298005201 substrate binding pocket [chemical binding]; other site 935298005202 active site 935298005203 Uncharacterized conserved protein [Function unknown]; Region: COG2966 935298005204 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 935298005205 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 935298005206 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 935298005207 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 935298005208 Clp amino terminal domain; Region: Clp_N; pfam02861 935298005209 Clp amino terminal domain; Region: Clp_N; pfam02861 935298005210 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 935298005211 Walker A motif; other site 935298005212 ATP binding site [chemical binding]; other site 935298005213 Walker B motif; other site 935298005214 arginine finger; other site 935298005215 UvrB/uvrC motif; Region: UVR; pfam02151 935298005216 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 935298005217 Walker A motif; other site 935298005218 ATP binding site [chemical binding]; other site 935298005219 Walker B motif; other site 935298005220 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935298005221 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 935298005222 putative substrate translocation pore; other site 935298005223 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 935298005224 active site 935298005225 tetramer interface [polypeptide binding]; other site 935298005226 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 935298005227 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 935298005228 CAAX protease self-immunity; Region: Abi; pfam02517 935298005229 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 935298005230 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 935298005231 dimer interface [polypeptide binding]; other site 935298005232 putative anticodon binding site; other site 935298005233 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 935298005234 motif 1; other site 935298005235 dimer interface [polypeptide binding]; other site 935298005236 active site 935298005237 motif 2; other site 935298005238 motif 3; other site 935298005239 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 935298005240 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 935298005241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 935298005242 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 935298005243 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 935298005244 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 935298005245 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 935298005246 NAD(P) binding site [chemical binding]; other site 935298005247 catalytic residues [active] 935298005248 choline dehydrogenase; Validated; Region: PRK02106 935298005249 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 935298005250 pantoate--beta-alanine ligase; Region: panC; TIGR00018 935298005251 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935298005252 active site 935298005253 nucleotide binding site [chemical binding]; other site 935298005254 HIGH motif; other site 935298005255 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935298005256 KMSKS motif; other site 935298005257 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 935298005258 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 935298005259 catalytic center binding site [active] 935298005260 ATP binding site [chemical binding]; other site 935298005261 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 935298005262 homooctamer interface [polypeptide binding]; other site 935298005263 active site 935298005264 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 935298005265 dihydropteroate synthase; Region: DHPS; TIGR01496 935298005266 substrate binding pocket [chemical binding]; other site 935298005267 dimer interface [polypeptide binding]; other site 935298005268 inhibitor binding site; inhibition site 935298005269 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 935298005270 GTP cyclohydrolase I; Provisional; Region: PLN03044 935298005271 homodecamer interface [polypeptide binding]; other site 935298005272 active site 935298005273 putative catalytic site residues [active] 935298005274 zinc binding site [ion binding]; other site 935298005275 GTP-CH-I/GFRP interaction surface; other site 935298005276 FtsH Extracellular; Region: FtsH_ext; pfam06480 935298005277 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 935298005278 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 935298005279 Walker A motif; other site 935298005280 ATP binding site [chemical binding]; other site 935298005281 Walker B motif; other site 935298005282 arginine finger; other site 935298005283 Peptidase family M41; Region: Peptidase_M41; pfam01434 935298005284 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298005285 active site 935298005286 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 935298005287 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 935298005288 Ligand Binding Site [chemical binding]; other site 935298005289 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 935298005290 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 935298005291 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 935298005292 dimer interface [polypeptide binding]; other site 935298005293 substrate binding site [chemical binding]; other site 935298005294 metal binding sites [ion binding]; metal-binding site 935298005295 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 935298005296 active site residue [active] 935298005297 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 935298005298 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 935298005299 Secretory lipase; Region: LIP; pfam03583 935298005300 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935298005301 MarR family; Region: MarR_2; pfam12802 935298005302 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935298005303 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 935298005304 acyl-activating enzyme (AAE) consensus motif; other site 935298005305 AMP binding site [chemical binding]; other site 935298005306 active site 935298005307 CoA binding site [chemical binding]; other site 935298005308 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935298005309 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 935298005310 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 935298005311 putative trimer interface [polypeptide binding]; other site 935298005312 putative CoA binding site [chemical binding]; other site 935298005313 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 935298005314 putative trimer interface [polypeptide binding]; other site 935298005315 putative CoA binding site [chemical binding]; other site 935298005316 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 935298005317 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 935298005318 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 935298005319 ring oligomerisation interface [polypeptide binding]; other site 935298005320 ATP/Mg binding site [chemical binding]; other site 935298005321 stacking interactions; other site 935298005322 hinge regions; other site 935298005323 hypothetical protein; Provisional; Region: PRK07907 935298005324 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 935298005325 active site 935298005326 metal binding site [ion binding]; metal-binding site 935298005327 dimer interface [polypeptide binding]; other site 935298005328 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 935298005329 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935298005330 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 935298005331 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 935298005332 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 935298005333 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07946 935298005334 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 935298005335 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935298005336 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 935298005337 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK07948 935298005338 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12592 935298005339 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 935298005340 carboxylate-amine ligase; Provisional; Region: PRK13517 935298005341 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 935298005342 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 935298005343 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 935298005344 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 935298005345 active site 935298005346 catalytic residues [active] 935298005347 metal binding site [ion binding]; metal-binding site 935298005348 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935298005349 Coenzyme A binding pocket [chemical binding]; other site 935298005350 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 935298005351 putative catalytic site [active] 935298005352 putative phosphate binding site [ion binding]; other site 935298005353 active site 935298005354 metal binding site A [ion binding]; metal-binding site 935298005355 DNA binding site [nucleotide binding] 935298005356 putative AP binding site [nucleotide binding]; other site 935298005357 putative metal binding site B [ion binding]; other site 935298005358 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 935298005359 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 935298005360 putative active site [active] 935298005361 catalytic site [active] 935298005362 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 935298005363 putative active site [active] 935298005364 catalytic site [active] 935298005365 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 935298005366 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 935298005367 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 935298005368 Walker A/P-loop; other site 935298005369 ATP binding site [chemical binding]; other site 935298005370 Q-loop/lid; other site 935298005371 ABC transporter signature motif; other site 935298005372 Walker B; other site 935298005373 D-loop; other site 935298005374 H-loop/switch region; other site 935298005375 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 935298005376 nudix motif; other site 935298005377 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 935298005378 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935298005379 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 935298005380 substrate binding pocket [chemical binding]; other site 935298005381 membrane-bound complex binding site; other site 935298005382 hinge residues; other site 935298005383 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 935298005384 Catalytic domain of Protein Kinases; Region: PKc; cd00180 935298005385 active site 935298005386 ATP binding site [chemical binding]; other site 935298005387 substrate binding site [chemical binding]; other site 935298005388 activation loop (A-loop); other site 935298005389 propionate/acetate kinase; Provisional; Region: PRK12379 935298005390 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 935298005391 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 935298005392 ferredoxin-NADP+ reductase; Region: PLN02852 935298005393 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935298005394 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935298005395 Coenzyme A binding pocket [chemical binding]; other site 935298005396 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 935298005397 active site 935298005398 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 935298005399 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935298005400 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298005401 active site 935298005402 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 935298005403 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 935298005404 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935298005405 catalytic residues [active] 935298005406 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 935298005407 ResB-like family; Region: ResB; pfam05140 935298005408 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 935298005409 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 935298005410 TPR motif; other site 935298005411 TPR repeat; Region: TPR_11; pfam13414 935298005412 binding surface 935298005413 Cytochrome c552; Region: Cytochrom_C552; pfam02335 935298005414 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 935298005415 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 935298005416 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 935298005417 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 935298005418 GDP-binding site [chemical binding]; other site 935298005419 ACT binding site; other site 935298005420 IMP binding site; other site 935298005421 Predicted membrane protein [Function unknown]; Region: COG4129 935298005422 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935298005423 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 935298005424 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935298005425 Walker A/P-loop; other site 935298005426 ATP binding site [chemical binding]; other site 935298005427 Q-loop/lid; other site 935298005428 ABC transporter signature motif; other site 935298005429 Walker B; other site 935298005430 D-loop; other site 935298005431 H-loop/switch region; other site 935298005432 Predicted transcriptional regulators [Transcription]; Region: COG1695 935298005433 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 935298005434 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 935298005435 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 935298005436 active site 935298005437 intersubunit interface [polypeptide binding]; other site 935298005438 zinc binding site [ion binding]; other site 935298005439 Na+ binding site [ion binding]; other site 935298005440 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 935298005441 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 935298005442 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935298005443 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935298005444 active site 935298005445 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 935298005446 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 935298005447 active site residue [active] 935298005448 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 935298005449 active site residue [active] 935298005450 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 935298005451 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 935298005452 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 935298005453 active site 935298005454 catalytic site [active] 935298005455 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 935298005456 Cna protein B-type domain; Region: Cna_B; pfam05738 935298005457 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 935298005458 active site 935298005459 catalytic site [active] 935298005460 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 935298005461 Clp amino terminal domain; Region: Clp_N; pfam02861 935298005462 Clp amino terminal domain; Region: Clp_N; pfam02861 935298005463 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 935298005464 Walker A motif; other site 935298005465 ATP binding site [chemical binding]; other site 935298005466 Walker B motif; other site 935298005467 arginine finger; other site 935298005468 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 935298005469 Walker A motif; other site 935298005470 ATP binding site [chemical binding]; other site 935298005471 Walker B motif; other site 935298005472 arginine finger; other site 935298005473 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935298005474 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 935298005475 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935298005476 Walker A/P-loop; other site 935298005477 ATP binding site [chemical binding]; other site 935298005478 Q-loop/lid; other site 935298005479 ABC transporter signature motif; other site 935298005480 Walker B; other site 935298005481 D-loop; other site 935298005482 H-loop/switch region; other site 935298005483 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 935298005484 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 935298005485 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 935298005486 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 935298005487 FAD binding pocket [chemical binding]; other site 935298005488 conserved FAD binding motif [chemical binding]; other site 935298005489 phosphate binding motif [ion binding]; other site 935298005490 beta-alpha-beta structure motif; other site 935298005491 NAD binding pocket [chemical binding]; other site 935298005492 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935298005493 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 935298005494 FtsX-like permease family; Region: FtsX; pfam02687 935298005495 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 935298005496 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935298005497 Walker A/P-loop; other site 935298005498 ATP binding site [chemical binding]; other site 935298005499 Q-loop/lid; other site 935298005500 ABC transporter signature motif; other site 935298005501 Walker B; other site 935298005502 D-loop; other site 935298005503 H-loop/switch region; other site 935298005504 HlyD family secretion protein; Region: HlyD_3; pfam13437 935298005505 Predicted amidohydrolase [General function prediction only]; Region: COG0388 935298005506 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 935298005507 active site 935298005508 catalytic triad [active] 935298005509 dimer interface [polypeptide binding]; other site 935298005510 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 935298005511 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 935298005512 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 935298005513 NAD binding site [chemical binding]; other site 935298005514 substrate binding site [chemical binding]; other site 935298005515 catalytic Zn binding site [ion binding]; other site 935298005516 tetramer interface [polypeptide binding]; other site 935298005517 structural Zn binding site [ion binding]; other site 935298005518 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 935298005519 active site 935298005520 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 935298005521 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 935298005522 DNA binding residues [nucleotide binding] 935298005523 chaperone protein DnaJ; Provisional; Region: PRK14279 935298005524 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 935298005525 HSP70 interaction site [polypeptide binding]; other site 935298005526 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 935298005527 Zn binding sites [ion binding]; other site 935298005528 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 935298005529 dimer interface [polypeptide binding]; other site 935298005530 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 935298005531 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 935298005532 dimer interface [polypeptide binding]; other site 935298005533 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 935298005534 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 935298005535 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 935298005536 nucleotide binding site [chemical binding]; other site 935298005537 NEF interaction site [polypeptide binding]; other site 935298005538 SBD interface [polypeptide binding]; other site 935298005539 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 935298005540 active site 935298005541 catalytic site [active] 935298005542 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 935298005543 Domain of unknown function DUF20; Region: UPF0118; pfam01594 935298005544 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298005545 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 935298005546 Walker A/P-loop; other site 935298005547 ATP binding site [chemical binding]; other site 935298005548 Q-loop/lid; other site 935298005549 ABC transporter signature motif; other site 935298005550 Walker B; other site 935298005551 D-loop; other site 935298005552 H-loop/switch region; other site 935298005553 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935298005554 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 935298005555 dimer interface [polypeptide binding]; other site 935298005556 conserved gate region; other site 935298005557 putative PBP binding loops; other site 935298005558 ABC-ATPase subunit interface; other site 935298005559 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 935298005560 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 935298005561 adrenodoxin reductase; Provisional; Region: PTZ00188 935298005562 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 935298005563 4Fe-4S binding domain; Region: Fer4; cl02805 935298005564 4Fe-4S binding domain; Region: Fer4; pfam00037 935298005565 Cysteine-rich domain; Region: CCG; pfam02754 935298005566 Cysteine-rich domain; Region: CCG; pfam02754 935298005567 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 935298005568 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 935298005569 dimerization interface [polypeptide binding]; other site 935298005570 putative DNA binding site [nucleotide binding]; other site 935298005571 putative Zn2+ binding site [ion binding]; other site 935298005572 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935298005573 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298005574 Walker A/P-loop; other site 935298005575 ATP binding site [chemical binding]; other site 935298005576 Q-loop/lid; other site 935298005577 ABC transporter signature motif; other site 935298005578 Walker B; other site 935298005579 D-loop; other site 935298005580 H-loop/switch region; other site 935298005581 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 935298005582 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298005583 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 935298005584 putative PBP binding regions; other site 935298005585 ABC-ATPase subunit interface; other site 935298005586 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 935298005587 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 935298005588 intersubunit interface [polypeptide binding]; other site 935298005589 UreD urease accessory protein; Region: UreD; cl00530 935298005590 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 935298005591 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 935298005592 UreF; Region: UreF; pfam01730 935298005593 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 935298005594 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 935298005595 dimer interface [polypeptide binding]; other site 935298005596 catalytic residues [active] 935298005597 urease subunit alpha; Reviewed; Region: ureC; PRK13207 935298005598 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 935298005599 subunit interactions [polypeptide binding]; other site 935298005600 active site 935298005601 flap region; other site 935298005602 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 935298005603 gamma-beta subunit interface [polypeptide binding]; other site 935298005604 alpha-beta subunit interface [polypeptide binding]; other site 935298005605 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 935298005606 alpha-gamma subunit interface [polypeptide binding]; other site 935298005607 beta-gamma subunit interface [polypeptide binding]; other site 935298005608 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935298005609 EamA-like transporter family; Region: EamA; pfam00892 935298005610 EamA-like transporter family; Region: EamA; pfam00892 935298005611 aminotransferase AlaT; Validated; Region: PRK09265 935298005612 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 935298005613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298005614 homodimer interface [polypeptide binding]; other site 935298005615 catalytic residue [active] 935298005616 YibE/F-like protein; Region: YibE_F; pfam07907 935298005617 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 935298005618 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 935298005619 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 935298005620 dimer interface [polypeptide binding]; other site 935298005621 putative anticodon binding site; other site 935298005622 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 935298005623 motif 1; other site 935298005624 dimer interface [polypeptide binding]; other site 935298005625 active site 935298005626 motif 2; other site 935298005627 motif 3; other site 935298005628 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 935298005629 Protein of unknown function (DUF998); Region: DUF998; pfam06197 935298005630 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 935298005631 trimer interface [polypeptide binding]; other site 935298005632 active site 935298005633 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 935298005634 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 935298005635 NAD(P) binding site [chemical binding]; other site 935298005636 catalytic residues [active] 935298005637 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 935298005638 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 935298005639 VanW like protein; Region: VanW; pfam04294 935298005640 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 935298005641 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 935298005642 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 935298005643 Acyltransferase family; Region: Acyl_transf_3; pfam01757 935298005644 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 935298005645 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935298005646 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 935298005647 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 935298005648 S-adenosylmethionine binding site [chemical binding]; other site 935298005649 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 935298005650 active site 935298005651 substrate-binding site [chemical binding]; other site 935298005652 metal-binding site [ion binding] 935298005653 GTP binding site [chemical binding]; other site 935298005654 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 935298005655 S-adenosylmethionine binding site [chemical binding]; other site 935298005656 LabA_like proteins; Region: LabA_like; cd06167 935298005657 putative metal binding site [ion binding]; other site 935298005658 MMPL family; Region: MMPL; pfam03176 935298005659 MMPL family; Region: MMPL; pfam03176 935298005660 Predicted integral membrane protein [Function unknown]; Region: COG0392 935298005661 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 935298005662 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935298005663 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 935298005664 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 935298005665 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 935298005666 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 935298005667 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 935298005668 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 935298005669 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 935298005670 active site 935298005671 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 935298005672 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 935298005673 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 935298005674 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 935298005675 acyl-activating enzyme (AAE) consensus motif; other site 935298005676 active site 935298005677 Putative esterase; Region: Esterase; pfam00756 935298005678 S-formylglutathione hydrolase; Region: PLN02442 935298005679 LGFP repeat; Region: LGFP; pfam08310 935298005680 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 935298005681 LGFP repeat; Region: LGFP; pfam08310 935298005682 LGFP repeat; Region: LGFP; pfam08310 935298005683 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 935298005684 Predicted esterase [General function prediction only]; Region: COG0627 935298005685 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 935298005686 UbiA prenyltransferase family; Region: UbiA; pfam01040 935298005687 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935298005688 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 935298005689 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 935298005690 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 935298005691 Repair protein; Region: Repair_PSII; pfam04536 935298005692 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 935298005693 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935298005694 active site 935298005695 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 935298005696 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 935298005697 active site 935298005698 catalytic site [active] 935298005699 metal binding site [ion binding]; metal-binding site 935298005700 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 935298005701 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 935298005702 putative substrate translocation pore; other site 935298005703 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 935298005704 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 935298005705 UDP-galactopyranose mutase; Region: GLF; pfam03275 935298005706 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935298005707 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935298005708 Walker A/P-loop; other site 935298005709 ATP binding site [chemical binding]; other site 935298005710 Q-loop/lid; other site 935298005711 ABC transporter signature motif; other site 935298005712 Walker B; other site 935298005713 D-loop; other site 935298005714 H-loop/switch region; other site 935298005715 FecCD transport family; Region: FecCD; pfam01032 935298005716 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 935298005717 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935298005718 putative PBP binding regions; other site 935298005719 ABC-ATPase subunit interface; other site 935298005720 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 935298005721 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 935298005722 putative binding site residues; other site 935298005723 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 935298005724 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 935298005725 amidase catalytic site [active] 935298005726 Zn binding residues [ion binding]; other site 935298005727 substrate binding site [chemical binding]; other site 935298005728 LGFP repeat; Region: LGFP; pfam08310 935298005729 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 935298005730 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 935298005731 active site 935298005732 motif I; other site 935298005733 motif II; other site 935298005734 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 935298005735 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 935298005736 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935298005737 putative acyl-acceptor binding pocket; other site 935298005738 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 935298005739 seryl-tRNA synthetase; Provisional; Region: PRK05431 935298005740 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 935298005741 dimer interface [polypeptide binding]; other site 935298005742 active site 935298005743 motif 1; other site 935298005744 motif 2; other site 935298005745 motif 3; other site 935298005746 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 935298005747 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935298005748 DNA-binding site [nucleotide binding]; DNA binding site 935298005749 UTRA domain; Region: UTRA; pfam07702 935298005750 Septum formation; Region: Septum_form; pfam13845 935298005751 Septum formation; Region: Septum_form; pfam13845 935298005752 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 935298005753 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 935298005754 catalytic core [active] 935298005755 Prephenate dehydratase; Region: PDT; pfam00800 935298005756 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 935298005757 putative L-Phe binding site [chemical binding]; other site 935298005758 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 935298005759 Amidase; Region: Amidase; cl11426 935298005760 CAAX protease self-immunity; Region: Abi; pfam02517 935298005761 Transcriptional regulator [Transcription]; Region: LytR; COG1316 935298005762 Htaa; Region: HtaA; pfam04213 935298005763 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 935298005764 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 935298005765 putative active site [active] 935298005766 catalytic site [active] 935298005767 putative metal binding site [ion binding]; other site 935298005768 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 935298005769 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 935298005770 Nucleoside recognition; Region: Gate; pfam07670 935298005771 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 935298005772 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 935298005773 active site 935298005774 catalytic motif [active] 935298005775 Zn binding site [ion binding]; other site 935298005776 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 935298005777 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 935298005778 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 935298005779 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 935298005780 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 935298005781 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 935298005782 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935298005783 NAD binding site [chemical binding]; other site 935298005784 dimer interface [polypeptide binding]; other site 935298005785 substrate binding site [chemical binding]; other site 935298005786 methionine sulfoxide reductase A; Provisional; Region: PRK00058 935298005787 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 935298005788 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 935298005789 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 935298005790 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 935298005791 Predicted flavoprotein [General function prediction only]; Region: COG0431 935298005792 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 935298005793 putative substrate translocation pore; other site 935298005794 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935298005795 Abi-like protein; Region: Abi_2; pfam07751 935298005796 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 935298005797 homodimer interface [polypeptide binding]; other site 935298005798 chemical substrate binding site [chemical binding]; other site 935298005799 oligomer interface [polypeptide binding]; other site 935298005800 metal binding site [ion binding]; metal-binding site 935298005801 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 935298005802 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 935298005803 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 935298005804 Lsr2; Region: Lsr2; pfam11774 935298005805 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935298005806 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298005807 active site 935298005808 phosphorylation site [posttranslational modification] 935298005809 intermolecular recognition site; other site 935298005810 dimerization interface [polypeptide binding]; other site 935298005811 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 935298005812 DNA binding residues [nucleotide binding] 935298005813 dimerization interface [polypeptide binding]; other site 935298005814 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 935298005815 Histidine kinase; Region: HisKA_3; pfam07730 935298005816 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 935298005817 ATP binding site [chemical binding]; other site 935298005818 Mg2+ binding site [ion binding]; other site 935298005819 G-X-G motif; other site 935298005820 Domain of unknown function (DUF2020); Region: DUF2020; pfam09449 935298005821 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 935298005822 active site 935298005823 catalytic site [active] 935298005824 putative inner membrane protein translocase component YidC; Validated; Region: PRK00247 935298005825 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 935298005826 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935298005827 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935298005828 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 935298005829 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 935298005830 Ligand Binding Site [chemical binding]; other site 935298005831 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 935298005832 Ligand Binding Site [chemical binding]; other site 935298005833 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 935298005834 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935298005835 active site 935298005836 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 935298005837 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 935298005838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935298005839 Walker A/P-loop; other site 935298005840 ATP binding site [chemical binding]; other site 935298005841 Q-loop/lid; other site 935298005842 ABC transporter signature motif; other site 935298005843 Walker B; other site 935298005844 D-loop; other site 935298005845 H-loop/switch region; other site 935298005846 Predicted transcriptional regulators [Transcription]; Region: COG1725 935298005847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935298005848 DNA-binding site [nucleotide binding]; DNA binding site 935298005849 LabA_like proteins; Region: LabA_like; cd06167 935298005850 putative metal binding site [ion binding]; other site 935298005851 Uncharacterized conserved protein [Function unknown]; Region: COG1432 935298005852 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 935298005853 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 935298005854 catalytic residues [active] 935298005855 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 935298005856 metal-binding site [ion binding] 935298005857 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 935298005858 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 935298005859 metal-binding site [ion binding] 935298005860 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935298005861 benzoate transport; Region: 2A0115; TIGR00895 935298005862 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 935298005863 putative substrate translocation pore; other site 935298005864 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 935298005865 replicative DNA helicase; Provisional; Region: PRK05636 935298005866 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 935298005867 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 935298005868 Walker A motif; other site 935298005869 ATP binding site [chemical binding]; other site 935298005870 Walker B motif; other site 935298005871 DNA binding loops [nucleotide binding] 935298005872 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 935298005873 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 935298005874 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 935298005875 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 935298005876 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 935298005877 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 935298005878 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 935298005879 dimer interface [polypeptide binding]; other site 935298005880 ssDNA binding site [nucleotide binding]; other site 935298005881 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935298005882 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 935298005883 Predicted integral membrane protein [Function unknown]; Region: COG5650 935298005884 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 935298005885 Transglycosylase; Region: Transgly; pfam00912 935298005886 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 935298005887 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935298005888 MarR family; Region: MarR; pfam01047 935298005889 MarR family; Region: MarR_2; cl17246 935298005890 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 935298005891 Ligand Binding Site [chemical binding]; other site 935298005892 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 935298005893 Ligand Binding Site [chemical binding]; other site 935298005894 short chain dehydrogenase; Provisional; Region: PRK08219 935298005895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935298005896 NAD(P) binding site [chemical binding]; other site 935298005897 active site 935298005898 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 935298005899 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 935298005900 active site residue [active] 935298005901 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935298005902 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 935298005903 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 935298005904 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 935298005905 dimerization interface [polypeptide binding]; other site 935298005906 DPS ferroxidase diiron center [ion binding]; other site 935298005907 ion pore; other site 935298005908 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 935298005909 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 935298005910 putative DNA binding site [nucleotide binding]; other site 935298005911 catalytic residue [active] 935298005912 putative H2TH interface [polypeptide binding]; other site 935298005913 putative catalytic residues [active] 935298005914 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 935298005915 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935298005916 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 935298005917 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 935298005918 putative substrate binding site [chemical binding]; other site 935298005919 putative ATP binding site [chemical binding]; other site 935298005920 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 935298005921 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 935298005922 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 935298005923 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 935298005924 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 935298005925 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 935298005926 HIGH motif; other site 935298005927 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 935298005928 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935298005929 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935298005930 active site 935298005931 KMSKS motif; other site 935298005932 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 935298005933 tRNA binding surface [nucleotide binding]; other site 935298005934 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 935298005935 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935298005936 Walker A/P-loop; other site 935298005937 ATP binding site [chemical binding]; other site 935298005938 Q-loop/lid; other site 935298005939 ABC transporter signature motif; other site 935298005940 Walker B; other site 935298005941 D-loop; other site 935298005942 H-loop/switch region; other site 935298005943 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935298005944 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 935298005945 FtsX-like permease family; Region: FtsX; pfam02687 935298005946 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 935298005947 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 935298005948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 935298005949 Histidine kinase; Region: HisKA_3; pfam07730 935298005950 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 935298005951 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935298005952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 935298005953 active site 935298005954 phosphorylation site [posttranslational modification] 935298005955 intermolecular recognition site; other site 935298005956 dimerization interface [polypeptide binding]; other site 935298005957 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 935298005958 DNA binding residues [nucleotide binding] 935298005959 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 935298005960 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 935298005961 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 935298005962 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 935298005963 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 935298005964 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 935298005965 active site 935298005966 trimer interface [polypeptide binding]; other site 935298005967 allosteric site; other site 935298005968 active site lid [active] 935298005969 hexamer (dimer of trimers) interface [polypeptide binding]; other site 935298005970 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 935298005971 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 935298005972 active site 935298005973 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 935298005974 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 935298005975 putative active site cavity [active] 935298005976 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935298005977 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935298005978 nucleotide binding site [chemical binding]; other site 935298005979 Transcriptional regulators [Transcription]; Region: FadR; COG2186 935298005980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935298005981 DNA-binding site [nucleotide binding]; DNA binding site 935298005982 FCD domain; Region: FCD; pfam07729 935298005983 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935298005984 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 935298005985 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935298005986 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 935298005987 dimer interface [polypeptide binding]; other site 935298005988 conserved gate region; other site 935298005989 putative PBP binding loops; other site 935298005990 ABC-ATPase subunit interface; other site 935298005991 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 935298005992 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 935298005993 dimer interface [polypeptide binding]; other site 935298005994 conserved gate region; other site 935298005995 putative PBP binding loops; other site 935298005996 ABC-ATPase subunit interface; other site 935298005997 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 935298005998 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298005999 Walker A/P-loop; other site 935298006000 ATP binding site [chemical binding]; other site 935298006001 Q-loop/lid; other site 935298006002 ABC transporter signature motif; other site 935298006003 Walker B; other site 935298006004 D-loop; other site 935298006005 H-loop/switch region; other site 935298006006 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 935298006007 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 935298006008 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935298006009 Walker A/P-loop; other site 935298006010 ATP binding site [chemical binding]; other site 935298006011 Q-loop/lid; other site 935298006012 ABC transporter signature motif; other site 935298006013 Walker B; other site 935298006014 D-loop; other site 935298006015 H-loop/switch region; other site 935298006016 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935298006017 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 935298006018 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 935298006019 inhibitor site; inhibition site 935298006020 active site 935298006021 dimer interface [polypeptide binding]; other site 935298006022 catalytic residue [active] 935298006023 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 935298006024 active site 935298006025 catalytic residues [active] 935298006026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 935298006027 hypothetical protein; Provisional; Region: PRK13663 935298006028 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 935298006029 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 935298006030 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 935298006031 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 935298006032 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 935298006033 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 935298006034 substrate binding pocket [chemical binding]; other site 935298006035 substrate-Mg2+ binding site; other site 935298006036 aspartate-rich region 1; other site 935298006037 aspartate-rich region 2; other site 935298006038 phytoene desaturase; Region: crtI_fam; TIGR02734 935298006039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 935298006040 SdpI/YhfL protein family; Region: SdpI; pfam13630 935298006041 anthranilate synthase component I; Provisional; Region: PRK13564 935298006042 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 935298006043 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 935298006044 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 935298006045 Glutamine amidotransferase class-I; Region: GATase; pfam00117 935298006046 glutamine binding [chemical binding]; other site 935298006047 catalytic triad [active] 935298006048 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 935298006049 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 935298006050 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 935298006051 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 935298006052 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 935298006053 active site 935298006054 ribulose/triose binding site [chemical binding]; other site 935298006055 phosphate binding site [ion binding]; other site 935298006056 substrate (anthranilate) binding pocket [chemical binding]; other site 935298006057 product (indole) binding pocket [chemical binding]; other site 935298006058 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 935298006059 active site 935298006060 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 935298006061 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 935298006062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935298006063 catalytic residue [active] 935298006064 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 935298006065 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 935298006066 substrate binding site [chemical binding]; other site 935298006067 active site 935298006068 catalytic residues [active] 935298006069 heterodimer interface [polypeptide binding]; other site 935298006070 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 935298006071 iron-sulfur cluster [ion binding]; other site 935298006072 [2Fe-2S] cluster binding site [ion binding]; other site 935298006073 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 935298006074 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 935298006075 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 935298006076 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 935298006077 hypothetical protein; Validated; Region: PRK00228 935298006078 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 935298006079 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 935298006080 active site 935298006081 NTP binding site [chemical binding]; other site 935298006082 metal binding triad [ion binding]; metal-binding site 935298006083 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 935298006084 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935298006085 Zn2+ binding site [ion binding]; other site 935298006086 Mg2+ binding site [ion binding]; other site 935298006087 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 935298006088 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 935298006089 active site 935298006090 Ap6A binding site [chemical binding]; other site 935298006091 nudix motif; other site 935298006092 metal binding site [ion binding]; metal-binding site 935298006093 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 935298006094 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 935298006095 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 935298006096 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935298006097 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 935298006098 DNA binding residues [nucleotide binding] 935298006099 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 935298006100 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935298006101 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935298006102 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 935298006103 catalytic residues [active] 935298006104 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 935298006105 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 935298006106 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 935298006107 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 935298006108 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 935298006109 active site 935298006110 metal binding site [ion binding]; metal-binding site 935298006111 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 935298006112 ParB-like nuclease domain; Region: ParBc; pfam02195 935298006113 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 935298006114 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 935298006115 P-loop; other site 935298006116 Magnesium ion binding site [ion binding]; other site 935298006117 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 935298006118 Magnesium ion binding site [ion binding]; other site 935298006119 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 935298006120 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 935298006121 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 935298006122 Haemolytic domain; Region: Haemolytic; pfam01809 935298006123 ribonuclease P; Reviewed; Region: rnpA; PRK03459 935298006124 Ribosomal protein L34; Region: Ribosomal_L34; cl00370