-- dump date 20140619_121005 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1193292000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1193292000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1193292000003 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 1193292000004 Walker A motif; other site 1193292000005 ATP binding site [chemical binding]; other site 1193292000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1193292000007 Walker B motif; other site 1193292000008 arginine finger; other site 1193292000009 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 1193292000010 DnaA box-binding interface [nucleotide binding]; other site 1193292000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1193292000012 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 1193292000013 putative DNA binding surface [nucleotide binding]; other site 1193292000014 dimer interface [polypeptide binding]; other site 1193292000015 beta-clamp/clamp loader binding surface; other site 1193292000016 beta-clamp/translesion DNA polymerase binding surface; other site 1193292000017 recF protein; Region: recf; TIGR00611 1193292000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292000019 Walker A/P-loop; other site 1193292000020 ATP binding site [chemical binding]; other site 1193292000021 Q-loop/lid; other site 1193292000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292000023 ABC transporter signature motif; other site 1193292000024 Walker B; other site 1193292000025 D-loop; other site 1193292000026 H-loop/switch region; other site 1193292000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1193292000028 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 1193292000029 Mg2+ binding site [ion binding]; other site 1193292000030 G-X-G motif; other site 1193292000031 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 1193292000032 anchoring element; other site 1193292000033 dimer interface [polypeptide binding]; other site 1193292000034 ATP binding site [chemical binding]; other site 1193292000035 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 1193292000036 active site 1193292000037 putative metal-binding site [ion binding]; other site 1193292000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1193292000039 sugar phosphate phosphatase; Provisional; Region: PRK10513 1193292000040 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 1193292000041 active site 1193292000042 motif I; other site 1193292000043 motif II; other site 1193292000044 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 1193292000045 Surface antigen; Region: Bac_surface_Ag; pfam01103 1193292000046 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1193292000047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292000048 DNA-binding site [nucleotide binding]; DNA binding site 1193292000049 FCD domain; Region: FCD; pfam07729 1193292000050 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1193292000051 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1193292000052 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1193292000053 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1193292000054 active site 1193292000055 intersubunit interface [polypeptide binding]; other site 1193292000056 catalytic residue [active] 1193292000057 galactonate dehydratase; Provisional; Region: PRK14017 1193292000058 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 1193292000059 putative active site pocket [active] 1193292000060 putative metal binding site [ion binding]; other site 1193292000061 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 1193292000062 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292000063 putative substrate translocation pore; other site 1193292000064 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 1193292000065 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1193292000066 hypothetical protein; Provisional; Region: PRK11616 1193292000067 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1193292000068 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1193292000069 putative dimer interface [polypeptide binding]; other site 1193292000070 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1193292000071 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1193292000072 putative dimer interface [polypeptide binding]; other site 1193292000073 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 1193292000074 BRO family, N-terminal domain; Region: Bro-N; cl10591 1193292000075 putative transporter; Validated; Region: PRK03818 1193292000076 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1193292000077 TrkA-C domain; Region: TrkA_C; pfam02080 1193292000078 TrkA-C domain; Region: TrkA_C; pfam02080 1193292000079 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1193292000080 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1193292000081 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292000082 DNA-binding site [nucleotide binding]; DNA binding site 1193292000083 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1193292000084 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 1193292000085 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1193292000086 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 1193292000087 active site turn [active] 1193292000088 phosphorylation site [posttranslational modification] 1193292000089 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1193292000090 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 1193292000091 NAD binding site [chemical binding]; other site 1193292000092 sugar binding site [chemical binding]; other site 1193292000093 divalent metal binding site [ion binding]; other site 1193292000094 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292000095 dimer interface [polypeptide binding]; other site 1193292000096 Predicted membrane protein [Function unknown]; Region: COG2149 1193292000097 Domain of unknown function (DUF202); Region: DUF202; pfam02656 1193292000098 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1193292000099 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 1193292000100 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1193292000101 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292000102 catalytic residue [active] 1193292000103 permease DsdX; Provisional; Region: PRK09921 1193292000104 GntP family permease; Region: GntP_permease; pfam02447 1193292000105 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 1193292000106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292000107 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1193292000108 dimerization interface [polypeptide binding]; other site 1193292000109 substrate binding pocket [chemical binding]; other site 1193292000110 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 1193292000111 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 1193292000112 putative substrate translocation pore; other site 1193292000113 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1193292000114 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1193292000115 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292000116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292000117 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1193292000118 Coenzyme A binding pocket [chemical binding]; other site 1193292000119 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 1193292000120 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1193292000121 PYR/PP interface [polypeptide binding]; other site 1193292000122 dimer interface [polypeptide binding]; other site 1193292000123 TPP binding site [chemical binding]; other site 1193292000124 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1193292000125 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1193292000126 TPP-binding site [chemical binding]; other site 1193292000127 dimer interface [polypeptide binding]; other site 1193292000128 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 1193292000129 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1193292000130 putative valine binding site [chemical binding]; other site 1193292000131 dimer interface [polypeptide binding]; other site 1193292000132 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 1193292000133 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 1193292000134 active site 1193292000135 phosphorylation site [posttranslational modification] 1193292000136 intermolecular recognition site; other site 1193292000137 dimerization interface [polypeptide binding]; other site 1193292000138 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 1193292000139 DNA binding residues [nucleotide binding] 1193292000140 dimerization interface [polypeptide binding]; other site 1193292000141 sensory histidine kinase UhpB; Provisional; Region: PRK11644 1193292000142 MASE1; Region: MASE1; pfam05231 1193292000143 Histidine kinase; Region: HisKA_3; pfam07730 1193292000144 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 1193292000145 ATP binding site [chemical binding]; other site 1193292000146 Mg2+ binding site [ion binding]; other site 1193292000147 G-X-G motif; other site 1193292000148 regulatory protein UhpC; Provisional; Region: PRK11663 1193292000149 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 1193292000150 putative substrate translocation pore; other site 1193292000151 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1193292000152 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 1193292000153 putative substrate translocation pore; other site 1193292000154 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 1193292000155 Predicted transcriptional regulator [Transcription]; Region: COG2944 1193292000156 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 1193292000157 non-specific DNA binding site [nucleotide binding]; other site 1193292000158 salt bridge; other site 1193292000159 sequence-specific DNA binding site [nucleotide binding]; other site 1193292000160 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1193292000161 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 1193292000162 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 1193292000163 putative substrate translocation pore; other site 1193292000164 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1193292000165 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 1193292000166 motif II; other site 1193292000167 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1193292000168 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292000169 catalytic residue [active] 1193292000170 transcriptional regulator protein; Region: phnR; TIGR03337 1193292000171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292000172 DNA-binding site [nucleotide binding]; DNA binding site 1193292000173 UTRA domain; Region: UTRA; pfam07702 1193292000174 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 1193292000175 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1193292000176 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 1193292000177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292000178 Walker A/P-loop; other site 1193292000179 ATP binding site [chemical binding]; other site 1193292000180 Q-loop/lid; other site 1193292000181 ABC transporter signature motif; other site 1193292000182 Walker B; other site 1193292000183 D-loop; other site 1193292000184 H-loop/switch region; other site 1193292000185 TOBE domain; Region: TOBE_2; pfam08402 1193292000186 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 1193292000187 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 1193292000188 dimer interface [polypeptide binding]; other site 1193292000189 conserved gate region; other site 1193292000190 putative PBP binding loops; other site 1193292000191 ABC-ATPase subunit interface; other site 1193292000192 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1193292000193 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 1193292000194 dimer interface [polypeptide binding]; other site 1193292000195 conserved gate region; other site 1193292000196 putative PBP binding loops; other site 1193292000197 ABC-ATPase subunit interface; other site 1193292000198 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1193292000199 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1193292000200 methionine cluster; other site 1193292000201 active site 1193292000202 phosphorylation site [posttranslational modification] 1193292000203 metal binding site [ion binding]; metal-binding site 1193292000204 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1193292000205 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1193292000206 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1193292000207 active site 1193292000208 P-loop; other site 1193292000209 phosphorylation site [posttranslational modification] 1193292000210 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292000211 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292000212 DNA binding site [nucleotide binding] 1193292000213 domain linker motif; other site 1193292000214 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1193292000215 ligand binding site [chemical binding]; other site 1193292000216 benzoate transport; Region: 2A0115; TIGR00895 1193292000217 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 1193292000218 putative substrate translocation pore; other site 1193292000219 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 1193292000220 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 1193292000221 putative active site [active] 1193292000222 Fe(II) binding site [ion binding]; other site 1193292000223 putative dimer interface [polypeptide binding]; other site 1193292000224 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 1193292000225 putative dimer interface [polypeptide binding]; other site 1193292000226 putative N- and C-terminal domain interface [polypeptide binding]; other site 1193292000227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292000228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292000229 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1193292000230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292000231 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1193292000232 putative dimerization interface [polypeptide binding]; other site 1193292000233 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1193292000234 hypothetical protein; Provisional; Region: PRK09262 1193292000235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1193292000236 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1193292000237 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 1193292000238 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1193292000239 EamA-like transporter family; Region: EamA; pfam00892 1193292000240 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 1193292000241 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 1193292000242 active site turn [active] 1193292000243 phosphorylation site [posttranslational modification] 1193292000244 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1193292000245 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1193292000246 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1193292000247 putative active site [active] 1193292000248 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 1193292000249 putative substrate translocation pore; other site 1193292000250 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1193292000251 Protein export membrane protein; Region: SecD_SecF; cl14618 1193292000252 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1193292000253 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292000254 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292000255 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1193292000256 Coenzyme A binding pocket [chemical binding]; other site 1193292000257 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292000258 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292000259 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1193292000260 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 1193292000261 putative substrate translocation pore; other site 1193292000262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292000263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292000264 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1193292000265 putative effector binding pocket; other site 1193292000266 putative dimerization interface [polypeptide binding]; other site 1193292000267 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1193292000268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1193292000269 SnoaL-like domain; Region: SnoaL_2; pfam12680 1193292000270 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1193292000271 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1193292000272 Cupin; Region: Cupin_6; pfam12852 1193292000273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292000274 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292000275 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292000276 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 1193292000277 lipoprotein, YaeC family; Region: TIGR00363 1193292000278 EamA-like transporter family; Region: EamA; pfam00892 1193292000279 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1193292000280 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 1193292000281 dimer interface [polypeptide binding]; other site 1193292000282 ADP-ribose binding site [chemical binding]; other site 1193292000283 active site 1193292000284 nudix motif; other site 1193292000285 metal binding site [ion binding]; metal-binding site 1193292000286 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1193292000287 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1193292000288 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1193292000289 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1193292000290 conserved cys residue [active] 1193292000291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292000292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292000293 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1193292000294 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1193292000295 putative NAD(P) binding site [chemical binding]; other site 1193292000296 putative substrate binding site [chemical binding]; other site 1193292000297 catalytic Zn binding site [ion binding]; other site 1193292000298 structural Zn binding site [ion binding]; other site 1193292000299 dimer interface [polypeptide binding]; other site 1193292000300 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 1193292000301 Transcriptional regulator; Region: Rrf2; cl17282 1193292000302 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1193292000303 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1193292000304 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1193292000305 putative NAD(P) binding site [chemical binding]; other site 1193292000306 dimer interface [polypeptide binding]; other site 1193292000307 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 1193292000308 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 1193292000309 integrase; Provisional; Region: PRK09692 1193292000310 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1193292000311 active site 1193292000312 Int/Topo IB signature motif; other site 1193292000313 putative transporter; Provisional; Region: PRK11462 1193292000314 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1193292000315 putative alpha-glucosidase; Provisional; Region: PRK10658 1193292000316 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1193292000317 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 1193292000318 active site 1193292000319 homotrimer interface [polypeptide binding]; other site 1193292000320 catalytic site [active] 1193292000321 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 1193292000322 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1193292000323 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292000324 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1193292000325 putative active site [active] 1193292000326 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1193292000327 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1193292000328 NAD(P) binding site [chemical binding]; other site 1193292000329 LDH/MDH dimer interface [polypeptide binding]; other site 1193292000330 substrate binding site [chemical binding]; other site 1193292000331 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1193292000332 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 1193292000333 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 1193292000334 active site turn [active] 1193292000335 phosphorylation site [posttranslational modification] 1193292000336 AsmA family; Region: AsmA; pfam05170 1193292000337 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1193292000338 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1193292000339 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1193292000340 glycerol kinase; Provisional; Region: glpK; PRK00047 1193292000341 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1193292000342 N- and C-terminal domain interface [polypeptide binding]; other site 1193292000343 active site 1193292000344 MgATP binding site [chemical binding]; other site 1193292000345 catalytic site [active] 1193292000346 metal binding site [ion binding]; metal-binding site 1193292000347 glycerol binding site [chemical binding]; other site 1193292000348 homotetramer interface [polypeptide binding]; other site 1193292000349 homodimer interface [polypeptide binding]; other site 1193292000350 FBP binding site [chemical binding]; other site 1193292000351 protein IIAGlc interface [polypeptide binding]; other site 1193292000352 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1193292000353 amphipathic channel; other site 1193292000354 Asn-Pro-Ala signature motifs; other site 1193292000355 septal ring assembly protein ZapB; Provisional; Region: PRK15422 1193292000356 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1193292000357 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 1193292000358 substrate binding pocket [chemical binding]; other site 1193292000359 membrane-bound complex binding site; other site 1193292000360 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 1193292000361 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1193292000362 transmembrane helices; other site 1193292000363 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1193292000364 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 1193292000365 triosephosphate isomerase; Provisional; Region: PRK14567 1193292000366 substrate binding site [chemical binding]; other site 1193292000367 dimer interface [polypeptide binding]; other site 1193292000368 catalytic triad [active] 1193292000369 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 1193292000370 Predicted membrane protein [Function unknown]; Region: COG3152 1193292000371 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1193292000372 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1193292000373 FAD binding pocket [chemical binding]; other site 1193292000374 FAD binding motif [chemical binding]; other site 1193292000375 phosphate binding motif [ion binding]; other site 1193292000376 beta-alpha-beta structure motif; other site 1193292000377 NAD binding pocket [chemical binding]; other site 1193292000378 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 1193292000379 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1193292000380 putative active site [active] 1193292000381 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1193292000382 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 1193292000383 generic binding surface II; other site 1193292000384 ssDNA binding site; other site 1193292000385 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 1193292000386 ATP binding site [chemical binding]; other site 1193292000387 putative Mg++ binding site [ion binding]; other site 1193292000388 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 1193292000389 nucleotide binding region [chemical binding]; other site 1193292000390 ATP-binding site [chemical binding]; other site 1193292000391 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1193292000392 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1193292000393 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1193292000394 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1193292000395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292000396 Zn2+ binding site [ion binding]; other site 1193292000397 Mg2+ binding site [ion binding]; other site 1193292000398 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1193292000399 synthetase active site [active] 1193292000400 NTP binding site [chemical binding]; other site 1193292000401 metal binding site [ion binding]; metal-binding site 1193292000402 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 1193292000403 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1193292000404 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1193292000405 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1193292000406 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 1193292000407 catalytic site [active] 1193292000408 G-X2-G-X-G-K; other site 1193292000409 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1193292000410 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; cl03295 1193292000411 nucleotide binding pocket [chemical binding]; other site 1193292000412 K-X-D-G motif; other site 1193292000413 catalytic site [active] 1193292000414 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1193292000415 Predicted membrane protein [Function unknown]; Region: COG2860 1193292000416 UPF0126 domain; Region: UPF0126; pfam03458 1193292000417 UPF0126 domain; Region: UPF0126; pfam03458 1193292000418 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 1193292000419 putative ion selectivity filter; other site 1193292000420 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1193292000421 putative pore gating glutamate residue; other site 1193292000422 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1193292000423 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1193292000424 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1193292000425 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 1193292000426 DNA binding site [nucleotide binding] 1193292000427 active site 1193292000428 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1193292000429 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1193292000430 tetramer interface [polypeptide binding]; other site 1193292000431 active site 1193292000432 Mg2+/Mn2+ binding site [ion binding]; other site 1193292000433 hypothetical protein; Provisional; Region: PRK11820 1193292000434 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1193292000435 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1193292000436 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 1193292000437 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1193292000438 putative acyl-acceptor binding pocket; other site 1193292000439 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1193292000440 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1193292000441 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292000442 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1193292000443 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1193292000444 Walker A/P-loop; other site 1193292000445 ATP binding site [chemical binding]; other site 1193292000446 Q-loop/lid; other site 1193292000447 ABC transporter signature motif; other site 1193292000448 Walker B; other site 1193292000449 D-loop; other site 1193292000450 H-loop/switch region; other site 1193292000451 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1193292000452 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1193292000453 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1193292000454 ribonuclease PH; Reviewed; Region: rph; PRK00173 1193292000455 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1193292000456 hexamer interface [polypeptide binding]; other site 1193292000457 active site 1193292000458 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1193292000459 active site 1193292000460 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1193292000461 division inhibitor protein; Provisional; Region: slmA; PRK09480 1193292000462 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292000463 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1193292000464 Flavoprotein; Region: Flavoprotein; pfam02441 1193292000465 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1193292000466 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1193292000467 trimer interface [polypeptide binding]; other site 1193292000468 active site 1193292000469 hypothetical protein; Reviewed; Region: PRK00024 1193292000470 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1193292000471 MPN+ (JAMM) motif; other site 1193292000472 Zinc-binding site [ion binding]; other site 1193292000473 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1193292000474 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1193292000475 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1193292000476 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1193292000477 DNA binding site [nucleotide binding] 1193292000478 catalytic residue [active] 1193292000479 H2TH interface [polypeptide binding]; other site 1193292000480 putative catalytic residues [active] 1193292000481 turnover-facilitating residue; other site 1193292000482 intercalation triad [nucleotide binding]; other site 1193292000483 8OG recognition residue [nucleotide binding]; other site 1193292000484 putative reading head residues; other site 1193292000485 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1193292000486 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1193292000487 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1193292000488 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1193292000489 active site 1193292000490 (T/H)XGH motif; other site 1193292000491 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1193292000492 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1193292000493 putative metal binding site; other site 1193292000494 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1193292000495 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1193292000496 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1193292000497 putative glycosyl transferase; Provisional; Region: PRK10073 1193292000498 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1193292000499 active site 1193292000500 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1193292000501 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1193292000502 putative ADP-binding pocket [chemical binding]; other site 1193292000503 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 1193292000504 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1193292000505 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 1193292000506 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1193292000507 putative active site [active] 1193292000508 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 1193292000509 putative active site [active] 1193292000510 putative catalytic site [active] 1193292000511 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1193292000512 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1193292000513 O-Antigen ligase; Region: Wzy_C; pfam04932 1193292000514 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 1193292000515 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1193292000516 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1193292000517 putative active site [active] 1193292000518 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1193292000519 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1193292000520 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1193292000521 putative active site [active] 1193292000522 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1193292000523 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1193292000524 NADP binding site [chemical binding]; other site 1193292000525 homopentamer interface [polypeptide binding]; other site 1193292000526 substrate binding site [chemical binding]; other site 1193292000527 active site 1193292000528 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1193292000529 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1193292000530 substrate-cofactor binding pocket; other site 1193292000531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292000532 catalytic residue [active] 1193292000533 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1193292000534 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1193292000535 NAD(P) binding site [chemical binding]; other site 1193292000536 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1193292000537 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1193292000538 putative metal binding site; other site 1193292000539 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1193292000540 NodB motif; other site 1193292000541 putative active site [active] 1193292000542 putative catalytic site [active] 1193292000543 Zn binding site [ion binding]; other site 1193292000544 AmiB activator; Provisional; Region: PRK11637 1193292000545 Vps51/Vps67; Region: Vps51; pfam08700 1193292000546 Peptidase family M23; Region: Peptidase_M23; pfam01551 1193292000547 phosphoglyceromutase; Provisional; Region: PRK05434 1193292000548 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1193292000549 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 1193292000550 active site residue [active] 1193292000551 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1193292000552 GSH binding site [chemical binding]; other site 1193292000553 catalytic residues [active] 1193292000554 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1193292000555 SecA binding site; other site 1193292000556 Preprotein binding site; other site 1193292000557 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1193292000558 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1193292000559 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1193292000560 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1193292000561 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1193292000562 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 1193292000563 trimer interface [polypeptide binding]; other site 1193292000564 active site 1193292000565 substrate binding site [chemical binding]; other site 1193292000566 CoA binding site [chemical binding]; other site 1193292000567 putative rRNA methylase; Provisional; Region: PRK10358 1193292000568 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1193292000569 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1193292000570 active site 1193292000571 substrate binding site [chemical binding]; other site 1193292000572 FMN binding site [chemical binding]; other site 1193292000573 putative catalytic residues [active] 1193292000574 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 1193292000575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292000576 DNA-binding site [nucleotide binding]; DNA binding site 1193292000577 FCD domain; Region: FCD; pfam07729 1193292000578 L-lactate permease; Provisional; Region: PRK10420 1193292000579 glycolate transporter; Provisional; Region: PRK09695 1193292000580 hypothetical protein; Provisional; Region: PRK11020 1193292000581 Glycogen synthesis protein; Region: GlgS; cl11663 1193292000582 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1193292000583 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 1193292000584 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1193292000585 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1193292000586 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1193292000587 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1193292000588 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1193292000589 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1193292000590 active site 1193292000591 P-loop; other site 1193292000592 phosphorylation site [posttranslational modification] 1193292000593 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 1193292000594 active site 1193292000595 phosphorylation site [posttranslational modification] 1193292000596 putative glutathione S-transferase; Provisional; Region: PRK10357 1193292000597 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1193292000598 putative C-terminal domain interface [polypeptide binding]; other site 1193292000599 putative GSH binding site (G-site) [chemical binding]; other site 1193292000600 putative dimer interface [polypeptide binding]; other site 1193292000601 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1193292000602 dimer interface [polypeptide binding]; other site 1193292000603 N-terminal domain interface [polypeptide binding]; other site 1193292000604 putative substrate binding pocket (H-site) [chemical binding]; other site 1193292000605 selenocysteine synthase; Provisional; Region: PRK04311 1193292000606 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1193292000607 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1193292000608 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292000609 catalytic residue [active] 1193292000610 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1193292000611 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1193292000612 G1 box; other site 1193292000613 putative GEF interaction site [polypeptide binding]; other site 1193292000614 GTP/Mg2+ binding site [chemical binding]; other site 1193292000615 Switch I region; other site 1193292000616 G2 box; other site 1193292000617 G3 box; other site 1193292000618 Switch II region; other site 1193292000619 G4 box; other site 1193292000620 G5 box; other site 1193292000621 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1193292000622 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1193292000623 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1193292000624 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1193292000625 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 1193292000626 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 1193292000627 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 1193292000628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292000629 homodimer interface [polypeptide binding]; other site 1193292000630 catalytic residue [active] 1193292000631 alpha-amylase; Reviewed; Region: malS; PRK09505 1193292000632 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1193292000633 active site 1193292000634 catalytic site [active] 1193292000635 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 1193292000636 hypothetical protein; Provisional; Region: PRK10356 1193292000637 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1193292000638 putative dimerization interface [polypeptide binding]; other site 1193292000639 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292000640 putative ligand binding site [chemical binding]; other site 1193292000641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292000642 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292000643 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292000644 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292000645 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 1193292000646 TM-ABC transporter signature motif; other site 1193292000647 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1193292000648 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292000649 Walker A/P-loop; other site 1193292000650 ATP binding site [chemical binding]; other site 1193292000651 Q-loop/lid; other site 1193292000652 ABC transporter signature motif; other site 1193292000653 Walker B; other site 1193292000654 D-loop; other site 1193292000655 H-loop/switch region; other site 1193292000656 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292000657 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1193292000658 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1193292000659 putative ligand binding site [chemical binding]; other site 1193292000660 xylose isomerase; Provisional; Region: PRK05474 1193292000661 xylose isomerase; Region: xylose_isom_A; TIGR02630 1193292000662 xylulokinase; Provisional; Region: PRK15027 1193292000663 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1193292000664 N- and C-terminal domain interface [polypeptide binding]; other site 1193292000665 active site 1193292000666 MgATP binding site [chemical binding]; other site 1193292000667 catalytic site [active] 1193292000668 metal binding site [ion binding]; metal-binding site 1193292000669 xylulose binding site [chemical binding]; other site 1193292000670 homodimer interface [polypeptide binding]; other site 1193292000671 hypothetical protein; Provisional; Region: PRK11403 1193292000672 yiaA/B two helix domain; Region: YiaAB; cl01759 1193292000673 hypothetical protein; Provisional; Region: PRK11383 1193292000674 yiaA/B two helix domain; Region: YiaAB; pfam05360 1193292000675 yiaA/B two helix domain; Region: YiaAB; pfam05360 1193292000676 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1193292000677 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1193292000678 YsaB-like lipoprotein; Region: YsaB; pfam13983 1193292000679 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1193292000680 dimer interface [polypeptide binding]; other site 1193292000681 motif 1; other site 1193292000682 active site 1193292000683 motif 2; other site 1193292000684 motif 3; other site 1193292000685 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1193292000686 DALR anticodon binding domain; Region: DALR_1; pfam05746 1193292000687 Hok/gef family; Region: HOK_GEF; cl11494 1193292000688 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1193292000689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292000690 Walker A/P-loop; other site 1193292000691 ATP binding site [chemical binding]; other site 1193292000692 Q-loop/lid; other site 1193292000693 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292000694 ABC transporter signature motif; other site 1193292000695 Walker B; other site 1193292000696 D-loop; other site 1193292000697 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292000698 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 1193292000699 DNA-binding site [nucleotide binding]; DNA binding site 1193292000700 RNA-binding motif; other site 1193292000701 Predicted transcriptional regulator [Transcription]; Region: COG2944 1193292000702 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 1193292000703 salt bridge; other site 1193292000704 non-specific DNA binding site [nucleotide binding]; other site 1193292000705 sequence-specific DNA binding site [nucleotide binding]; other site 1193292000706 benzoate transport; Region: 2A0115; TIGR00895 1193292000707 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 1193292000708 putative substrate translocation pore; other site 1193292000709 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 1193292000710 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 1193292000711 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1193292000712 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1193292000713 dimerization interface [polypeptide binding]; other site 1193292000714 ligand binding site [chemical binding]; other site 1193292000715 NADP binding site [chemical binding]; other site 1193292000716 catalytic site [active] 1193292000717 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 1193292000718 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292000719 putative substrate translocation pore; other site 1193292000720 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292000721 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1193292000722 substrate binding site [chemical binding]; other site 1193292000723 ATP binding site [chemical binding]; other site 1193292000724 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1193292000725 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292000726 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292000727 DNA binding site [nucleotide binding] 1193292000728 domain linker motif; other site 1193292000729 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1193292000730 putative dimerization interface [polypeptide binding]; other site 1193292000731 putative ligand binding site [chemical binding]; other site 1193292000732 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1193292000733 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1193292000734 ligand binding site [chemical binding]; other site 1193292000735 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1193292000736 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1193292000737 molybdopterin cofactor binding site [chemical binding]; other site 1193292000738 substrate binding site [chemical binding]; other site 1193292000739 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1193292000740 molybdopterin cofactor binding site; other site 1193292000741 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292000742 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292000743 Coenzyme A binding pocket [chemical binding]; other site 1193292000744 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1193292000745 Autotransporter beta-domain; Region: Autotransporter; cl17461 1193292000746 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1193292000747 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 1193292000748 putative substrate translocation pore; other site 1193292000749 phosphoethanolamine transferase; Provisional; Region: PRK11560 1193292000750 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1193292000751 Sulfatase; Region: Sulfatase; pfam00884 1193292000752 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 1193292000753 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1193292000754 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 1193292000755 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1193292000756 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 1193292000757 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1193292000758 putative transposase OrfB; Reviewed; Region: PHA02517 1193292000759 HTH-like domain; Region: HTH_21; pfam13276 1193292000760 Integrase core domain; Region: rve; pfam00665 1193292000761 Integrase core domain; Region: rve_2; pfam13333 1193292000762 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1193292000763 Helix-turn-helix domain; Region: HTH_28; pfam13518 1193292000764 Helix-turn-helix domain; Region: HTH_28; pfam13518 1193292000765 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1193292000766 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1193292000767 peptide binding site [polypeptide binding]; other site 1193292000768 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1193292000769 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 1193292000770 dimer interface [polypeptide binding]; other site 1193292000771 conserved gate region; other site 1193292000772 putative PBP binding loops; other site 1193292000773 ABC-ATPase subunit interface; other site 1193292000774 dipeptide transporter; Provisional; Region: PRK10913 1193292000775 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1193292000776 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 1193292000777 dimer interface [polypeptide binding]; other site 1193292000778 conserved gate region; other site 1193292000779 putative PBP binding loops; other site 1193292000780 ABC-ATPase subunit interface; other site 1193292000781 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1193292000782 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292000783 Walker A/P-loop; other site 1193292000784 ATP binding site [chemical binding]; other site 1193292000785 Q-loop/lid; other site 1193292000786 ABC transporter signature motif; other site 1193292000787 Walker B; other site 1193292000788 D-loop; other site 1193292000789 H-loop/switch region; other site 1193292000790 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1193292000791 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1193292000792 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292000793 Walker A/P-loop; other site 1193292000794 ATP binding site [chemical binding]; other site 1193292000795 Q-loop/lid; other site 1193292000796 ABC transporter signature motif; other site 1193292000797 Walker B; other site 1193292000798 D-loop; other site 1193292000799 H-loop/switch region; other site 1193292000800 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1193292000801 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 1193292000802 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 1193292000803 P-loop; other site 1193292000804 Magnesium ion binding site [ion binding]; other site 1193292000805 cellulose synthase regulator protein; Provisional; Region: PRK11114 1193292000806 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1193292000807 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 1193292000808 TPR motif; other site 1193292000809 binding surface 1193292000810 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1193292000811 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1193292000812 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1193292000813 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 1193292000814 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; pfam01270 1193292000815 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 1193292000816 Protein of unknown function (DUF2636); Region: DUF2636; pfam11120 1193292000817 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 1193292000818 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 1193292000819 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 1193292000820 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 1193292000821 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 1193292000822 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1193292000823 DXD motif; other site 1193292000824 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 1193292000825 PilZ domain; Region: PilZ; pfam07238 1193292000826 cellulose synthase regulator protein; Provisional; Region: PRK11114 1193292000827 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1193292000828 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1193292000829 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 1193292000830 TPR motif; other site 1193292000831 binding surface 1193292000832 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 1193292000833 binding surface 1193292000834 TPR motif; other site 1193292000835 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1193292000836 binding surface 1193292000837 TPR motif; other site 1193292000838 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1193292000839 putative diguanylate cyclase; Provisional; Region: PRK13561 1193292000840 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1193292000841 dimerization interface [polypeptide binding]; other site 1193292000842 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292000843 metal binding site [ion binding]; metal-binding site 1193292000844 active site 1193292000845 I-site; other site 1193292000846 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292000847 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1193292000848 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1193292000849 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1193292000850 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1193292000851 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292000852 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1193292000853 substrate binding site [chemical binding]; other site 1193292000854 ATP binding site [chemical binding]; other site 1193292000855 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1193292000856 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1193292000857 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 1193292000858 metabolite-proton symporter; Region: 2A0106; TIGR00883 1193292000859 putative substrate translocation pore; other site 1193292000860 inner membrane protein YhjD; Region: TIGR00766 1193292000861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292000862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292000863 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1193292000864 putative effector binding pocket; other site 1193292000865 putative dimerization interface [polypeptide binding]; other site 1193292000866 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1193292000867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292000868 NAD(P) binding site [chemical binding]; other site 1193292000869 active site 1193292000870 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1193292000871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1193292000872 trehalase; Provisional; Region: treF; PRK13270 1193292000873 Trehalase; Region: Trehalase; pfam01204 1193292000874 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1193292000875 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 1193292000876 putative active site [active] 1193292000877 metal binding site [ion binding]; metal-binding site 1193292000878 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1193292000879 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1193292000880 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1193292000881 putative N-terminal domain interface [polypeptide binding]; other site 1193292000882 putative dimer interface [polypeptide binding]; other site 1193292000883 putative substrate binding pocket (H-site) [chemical binding]; other site 1193292000884 glutathione reductase; Validated; Region: PRK06116 1193292000885 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292000886 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292000887 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1193292000888 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1193292000889 oligopeptidase A; Provisional; Region: PRK10911 1193292000890 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1193292000891 active site 1193292000892 Zn binding site [ion binding]; other site 1193292000893 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 1193292000894 S-adenosylmethionine binding site [chemical binding]; other site 1193292000895 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1193292000896 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 1193292000897 putative substrate translocation pore; other site 1193292000898 POT family; Region: PTR2; pfam00854 1193292000899 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 1193292000900 Ligand Binding Site [chemical binding]; other site 1193292000901 universal stress protein UspB; Provisional; Region: PRK04960 1193292000902 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1193292000903 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1193292000904 Predicted flavoproteins [General function prediction only]; Region: COG2081 1193292000905 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292000906 FOG: CBS domain [General function prediction only]; Region: COG0517 1193292000907 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 1193292000908 Divalent cation transporter; Region: MgtE; pfam01769 1193292000909 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1193292000910 HicB family; Region: HicB; pfam05534 1193292000911 nickel responsive regulator; Provisional; Region: PRK02967 1193292000912 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1193292000913 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 1193292000914 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292000915 Walker A/P-loop; other site 1193292000916 ATP binding site [chemical binding]; other site 1193292000917 Q-loop/lid; other site 1193292000918 ABC transporter signature motif; other site 1193292000919 Walker B; other site 1193292000920 D-loop; other site 1193292000921 H-loop/switch region; other site 1193292000922 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 1193292000923 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292000924 Walker A/P-loop; other site 1193292000925 ATP binding site [chemical binding]; other site 1193292000926 Q-loop/lid; other site 1193292000927 ABC transporter signature motif; other site 1193292000928 Walker B; other site 1193292000929 D-loop; other site 1193292000930 H-loop/switch region; other site 1193292000931 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 1193292000932 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 1193292000933 dimer interface [polypeptide binding]; other site 1193292000934 conserved gate region; other site 1193292000935 putative PBP binding loops; other site 1193292000936 ABC-ATPase subunit interface; other site 1193292000937 nickel transporter permease NikB; Provisional; Region: PRK10352 1193292000938 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 1193292000939 dimer interface [polypeptide binding]; other site 1193292000940 conserved gate region; other site 1193292000941 putative PBP binding loops; other site 1193292000942 ABC-ATPase subunit interface; other site 1193292000943 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1193292000944 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1193292000945 substrate binding site [chemical binding]; other site 1193292000946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292000947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292000948 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 1193292000949 dimerization interface [polypeptide binding]; other site 1193292000950 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; pfam05870 1193292000951 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1193292000952 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1193292000953 inhibitor-cofactor binding pocket; inhibition site 1193292000954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292000955 catalytic residue [active] 1193292000956 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1193292000957 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1193292000958 Ligand binding site; other site 1193292000959 Putative Catalytic site; other site 1193292000960 DXD motif; other site 1193292000961 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 1193292000962 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 1193292000963 substrate binding site [chemical binding]; other site 1193292000964 cosubstrate binding site; other site 1193292000965 catalytic site [active] 1193292000966 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1193292000967 active site 1193292000968 hexamer interface [polypeptide binding]; other site 1193292000969 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1193292000970 NAD binding site [chemical binding]; other site 1193292000971 substrate binding site [chemical binding]; other site 1193292000972 active site 1193292000973 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1193292000974 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1193292000975 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 1193292000976 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1193292000977 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1193292000978 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1193292000979 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1193292000980 major facilitator superfamily transporter; Provisional; Region: PRK05122 1193292000981 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 1193292000982 putative substrate translocation pore; other site 1193292000983 hypothetical protein; Provisional; Region: PRK11212 1193292000984 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; cl00436 1193292000985 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1193292000986 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 1193292000987 metal-binding site [ion binding] 1193292000988 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1193292000989 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1193292000990 Predicted membrane protein [Function unknown]; Region: COG3714 1193292000991 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 1193292000992 hypothetical protein; Provisional; Region: PRK10910 1193292000993 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1193292000994 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 1193292000995 S-adenosylmethionine binding site [chemical binding]; other site 1193292000996 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1193292000997 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1193292000998 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 1193292000999 P loop; other site 1193292001000 GTP binding site [chemical binding]; other site 1193292001001 cell division protein FtsE; Provisional; Region: PRK10908 1193292001002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292001003 Walker A/P-loop; other site 1193292001004 ATP binding site [chemical binding]; other site 1193292001005 Q-loop/lid; other site 1193292001006 ABC transporter signature motif; other site 1193292001007 Walker B; other site 1193292001008 D-loop; other site 1193292001009 H-loop/switch region; other site 1193292001010 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1193292001011 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1193292001012 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 1193292001013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292001014 DNA-binding site [nucleotide binding]; DNA binding site 1193292001015 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 1193292001016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292001017 homodimer interface [polypeptide binding]; other site 1193292001018 catalytic residue [active] 1193292001019 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1193292001020 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 1193292001021 inhibitor-cofactor binding pocket; inhibition site 1193292001022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292001023 catalytic residue [active] 1193292001024 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1193292001025 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1193292001026 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1193292001027 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1193292001028 dimerization interface [polypeptide binding]; other site 1193292001029 ligand binding site [chemical binding]; other site 1193292001030 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1193292001031 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1193292001032 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1193292001033 dimerization interface [polypeptide binding]; other site 1193292001034 ligand binding site [chemical binding]; other site 1193292001035 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292001036 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1193292001037 TM-ABC transporter signature motif; other site 1193292001038 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1193292001039 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1193292001040 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1193292001041 TM-ABC transporter signature motif; other site 1193292001042 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1193292001043 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1193292001044 Walker A/P-loop; other site 1193292001045 ATP binding site [chemical binding]; other site 1193292001046 Q-loop/lid; other site 1193292001047 ABC transporter signature motif; other site 1193292001048 Walker B; other site 1193292001049 D-loop; other site 1193292001050 H-loop/switch region; other site 1193292001051 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 1193292001052 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1193292001053 Walker A/P-loop; other site 1193292001054 ATP binding site [chemical binding]; other site 1193292001055 Q-loop/lid; other site 1193292001056 ABC transporter signature motif; other site 1193292001057 Walker B; other site 1193292001058 D-loop; other site 1193292001059 H-loop/switch region; other site 1193292001060 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1193292001061 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1193292001062 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 1193292001063 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1193292001064 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1193292001065 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 1193292001066 dimer interface [polypeptide binding]; other site 1193292001067 conserved gate region; other site 1193292001068 putative PBP binding loops; other site 1193292001069 ABC-ATPase subunit interface; other site 1193292001070 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1193292001071 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 1193292001072 dimer interface [polypeptide binding]; other site 1193292001073 conserved gate region; other site 1193292001074 putative PBP binding loops; other site 1193292001075 ABC-ATPase subunit interface; other site 1193292001076 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1193292001077 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1193292001078 Walker A/P-loop; other site 1193292001079 ATP binding site [chemical binding]; other site 1193292001080 Q-loop/lid; other site 1193292001081 ABC transporter signature motif; other site 1193292001082 Walker B; other site 1193292001083 D-loop; other site 1193292001084 H-loop/switch region; other site 1193292001085 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1193292001086 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1193292001087 putative active site [active] 1193292001088 catalytic site [active] 1193292001089 putative metal binding site [ion binding]; other site 1193292001090 Protein of unknown function (DUF2756); Region: DUF2756; pfam10956 1193292001091 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 1193292001092 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1193292001093 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1193292001094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292001095 Coenzyme A binding pocket [chemical binding]; other site 1193292001096 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1193292001097 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1193292001098 putative oxidoreductase; Provisional; Region: PRK10206 1193292001099 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292001100 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292001101 Pirin-related protein [General function prediction only]; Region: COG1741 1193292001102 Pirin; Region: Pirin; pfam02678 1193292001103 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1193292001104 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292001105 DNA binding site [nucleotide binding] 1193292001106 domain linker motif; other site 1193292001107 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1193292001108 putative ligand binding site [chemical binding]; other site 1193292001109 putative dimerization interface [polypeptide binding]; other site 1193292001110 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 1193292001111 ATP-binding site [chemical binding]; other site 1193292001112 Gluconate-6-phosphate binding site [chemical binding]; other site 1193292001113 low affinity gluconate transporter; Provisional; Region: PRK10472 1193292001114 gluconate transporter; Region: gntP; TIGR00791 1193292001115 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1193292001116 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1193292001117 glycogen branching enzyme; Provisional; Region: PRK05402 1193292001118 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1193292001119 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1193292001120 active site 1193292001121 catalytic site [active] 1193292001122 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1193292001123 glycogen debranching enzyme; Provisional; Region: PRK03705 1193292001124 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 1193292001125 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1193292001126 active site 1193292001127 catalytic site [active] 1193292001128 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1193292001129 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1193292001130 ligand binding site; other site 1193292001131 oligomer interface; other site 1193292001132 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 1193292001133 dimer interface [polypeptide binding]; other site 1193292001134 N-terminal domain interface [polypeptide binding]; other site 1193292001135 sulfate 1 binding site; other site 1193292001136 glycogen synthase; Provisional; Region: glgA; PRK00654 1193292001137 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1193292001138 ADP-binding pocket [chemical binding]; other site 1193292001139 homodimer interface [polypeptide binding]; other site 1193292001140 glycogen phosphorylase; Provisional; Region: PRK14986 1193292001141 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 1193292001142 homodimer interface [polypeptide binding]; other site 1193292001143 active site pocket [active] 1193292001144 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1193292001145 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1193292001146 active site residue [active] 1193292001147 intramembrane serine protease GlpG; Provisional; Region: PRK10907 1193292001148 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1193292001149 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1193292001150 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292001151 transcriptional regulator MalT; Provisional; Region: PRK04841 1193292001152 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 1193292001153 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 1193292001154 DNA binding residues [nucleotide binding] 1193292001155 dimerization interface [polypeptide binding]; other site 1193292001156 maltodextrin phosphorylase; Provisional; Region: PRK14985 1193292001157 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 1193292001158 homodimer interface [polypeptide binding]; other site 1193292001159 active site pocket [active] 1193292001160 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1193292001161 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1193292001162 high-affinity gluconate transporter; Provisional; Region: PRK14984 1193292001163 gluconate transporter; Region: gntP; TIGR00791 1193292001164 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1193292001165 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1193292001166 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1193292001167 DNA utilization protein GntX; Provisional; Region: PRK11595 1193292001168 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1193292001169 active site 1193292001170 carboxylesterase BioH; Provisional; Region: PRK10349 1193292001171 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292001172 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 1193292001173 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1193292001174 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1193292001175 G1 box; other site 1193292001176 GTP/Mg2+ binding site [chemical binding]; other site 1193292001177 Switch I region; other site 1193292001178 G2 box; other site 1193292001179 G3 box; other site 1193292001180 Switch II region; other site 1193292001181 G4 box; other site 1193292001182 G5 box; other site 1193292001183 Nucleoside recognition; Region: Gate; pfam07670 1193292001184 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1193292001185 Nucleoside recognition; Region: Gate; pfam07670 1193292001186 FeoA domain; Region: FeoA; cl00838 1193292001187 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1193292001188 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1193292001189 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1193292001190 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1193292001191 RNA binding site [nucleotide binding]; other site 1193292001192 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1193292001193 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1193292001194 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1193292001195 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1193292001196 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 1193292001197 active site 1193292001198 phosphorylation site [posttranslational modification] 1193292001199 intermolecular recognition site; other site 1193292001200 dimerization interface [polypeptide binding]; other site 1193292001201 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 1193292001202 DNA binding site [nucleotide binding] 1193292001203 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1193292001204 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 1193292001205 dimerization interface [polypeptide binding]; other site 1193292001206 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 1193292001207 dimer interface [polypeptide binding]; other site 1193292001208 phosphorylation site [posttranslational modification] 1193292001209 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 1193292001210 ATP binding site [chemical binding]; other site 1193292001211 Mg2+ binding site [ion binding]; other site 1193292001212 G-X-G motif; other site 1193292001213 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1193292001214 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1193292001215 active site 1193292001216 substrate-binding site [chemical binding]; other site 1193292001217 metal-binding site [ion binding] 1193292001218 ATP binding site [chemical binding]; other site 1193292001219 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1193292001220 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1193292001221 dimerization interface [polypeptide binding]; other site 1193292001222 domain crossover interface; other site 1193292001223 redox-dependent activation switch; other site 1193292001224 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 1193292001225 RNA binding surface [nucleotide binding]; other site 1193292001226 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1193292001227 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 1193292001228 motif II; other site 1193292001229 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 1193292001230 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1193292001231 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 1193292001232 ADP-ribose binding site [chemical binding]; other site 1193292001233 dimer interface [polypeptide binding]; other site 1193292001234 active site 1193292001235 nudix motif; other site 1193292001236 metal binding site [ion binding]; metal-binding site 1193292001237 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1193292001238 Transglycosylase; Region: Transgly; pfam00912 1193292001239 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1193292001240 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1193292001241 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 1193292001242 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1193292001243 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1193292001244 shikimate kinase; Reviewed; Region: aroK; PRK00131 1193292001245 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 1193292001246 ADP binding site [chemical binding]; other site 1193292001247 magnesium binding site [ion binding]; other site 1193292001248 putative shikimate binding site; other site 1193292001249 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1193292001250 active site 1193292001251 dimer interface [polypeptide binding]; other site 1193292001252 metal binding site [ion binding]; metal-binding site 1193292001253 cell division protein DamX; Validated; Region: PRK10905 1193292001254 hypothetical protein; Reviewed; Region: PRK11901 1193292001255 DNA adenine methylase; Provisional; Region: PRK10904 1193292001256 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 1193292001257 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1193292001258 substrate binding site [chemical binding]; other site 1193292001259 hexamer interface [polypeptide binding]; other site 1193292001260 metal binding site [ion binding]; metal-binding site 1193292001261 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1193292001262 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 1193292001263 motif II; other site 1193292001264 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1193292001265 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1193292001266 active site 1193292001267 HIGH motif; other site 1193292001268 dimer interface [polypeptide binding]; other site 1193292001269 KMSKS motif; other site 1193292001270 siroheme synthase; Provisional; Region: cysG; PRK10637 1193292001271 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1193292001272 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1193292001273 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1193292001274 active site 1193292001275 SAM binding site [chemical binding]; other site 1193292001276 homodimer interface [polypeptide binding]; other site 1193292001277 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1193292001278 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1193292001279 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292001280 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1193292001281 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1193292001282 cytosine deaminase; Provisional; Region: PRK09230 1193292001283 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1193292001284 active site 1193292001285 putative transporter; Provisional; Region: PRK03699 1193292001286 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 1193292001287 putative substrate translocation pore; other site 1193292001288 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1193292001289 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1193292001290 substrate binding site [chemical binding]; other site 1193292001291 hypothetical protein; Provisional; Region: PRK10204 1193292001292 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1193292001293 cell filamentation protein Fic; Provisional; Region: PRK10347 1193292001294 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1193292001295 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1193292001296 glutamine binding [chemical binding]; other site 1193292001297 catalytic triad [active] 1193292001298 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1193292001299 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 1193292001300 inhibitor-cofactor binding pocket; inhibition site 1193292001301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292001302 catalytic residue [active] 1193292001303 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1193292001304 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1193292001305 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1193292001306 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1193292001307 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 1193292001308 ligand binding site [chemical binding]; other site 1193292001309 flexible hinge region; other site 1193292001310 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 1193292001311 putative switch regulator; other site 1193292001312 non-specific DNA interactions [nucleotide binding]; other site 1193292001313 DNA binding site [nucleotide binding] 1193292001314 sequence specific DNA binding site [nucleotide binding]; other site 1193292001315 putative cAMP binding site [chemical binding]; other site 1193292001316 hypothetical protein; Provisional; Region: PRK10738 1193292001317 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 1193292001318 active site 1193292001319 hypothetical protein; Provisional; Region: PRK04966 1193292001320 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1193292001321 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292001322 Walker A/P-loop; other site 1193292001323 ATP binding site [chemical binding]; other site 1193292001324 Q-loop/lid; other site 1193292001325 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292001326 ABC transporter signature motif; other site 1193292001327 Walker B; other site 1193292001328 D-loop; other site 1193292001329 ABC transporter; Region: ABC_tran_2; pfam12848 1193292001330 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292001331 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1193292001332 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 1193292001333 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1193292001334 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1193292001335 TrkA-N domain; Region: TrkA_N; pfam02254 1193292001336 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 1193292001337 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1193292001338 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1193292001339 phi X174 lysis protein; Provisional; Region: PRK02793 1193292001340 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1193292001341 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1193292001342 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1193292001343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1193292001344 YheO-like PAS domain; Region: PAS_6; pfam08348 1193292001345 HTH domain; Region: HTH_22; pfam13309 1193292001346 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1193292001347 sulfur relay protein TusC; Validated; Region: PRK00211 1193292001348 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 1193292001349 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 1193292001350 S17 interaction site [polypeptide binding]; other site 1193292001351 S8 interaction site; other site 1193292001352 16S rRNA interaction site [nucleotide binding]; other site 1193292001353 streptomycin interaction site [chemical binding]; other site 1193292001354 23S rRNA interaction site [nucleotide binding]; other site 1193292001355 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1193292001356 30S ribosomal protein S7; Validated; Region: PRK05302 1193292001357 elongation factor G; Reviewed; Region: PRK00007 1193292001358 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1193292001359 G1 box; other site 1193292001360 putative GEF interaction site [polypeptide binding]; other site 1193292001361 GTP/Mg2+ binding site [chemical binding]; other site 1193292001362 Switch I region; other site 1193292001363 G2 box; other site 1193292001364 G3 box; other site 1193292001365 Switch II region; other site 1193292001366 G4 box; other site 1193292001367 G5 box; other site 1193292001368 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 1193292001369 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 1193292001370 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 1193292001371 elongation factor Tu; Reviewed; Region: PRK00049 1193292001372 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1193292001373 G1 box; other site 1193292001374 GEF interaction site [polypeptide binding]; other site 1193292001375 GTP/Mg2+ binding site [chemical binding]; other site 1193292001376 Switch I region; other site 1193292001377 G2 box; other site 1193292001378 G3 box; other site 1193292001379 Switch II region; other site 1193292001380 G4 box; other site 1193292001381 G5 box; other site 1193292001382 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 1193292001383 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 1193292001384 Antibiotic Binding Site [chemical binding]; other site 1193292001385 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1193292001386 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1193292001387 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1193292001388 heme binding site [chemical binding]; other site 1193292001389 ferroxidase pore; other site 1193292001390 ferroxidase diiron center [ion binding]; other site 1193292001391 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1193292001392 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1193292001393 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1193292001394 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1193292001395 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1193292001396 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1193292001397 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1193292001398 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1193292001399 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1193292001400 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 1193292001401 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 1193292001402 protein-rRNA interface [nucleotide binding]; other site 1193292001403 putative translocon binding site; other site 1193292001404 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1193292001405 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 1193292001406 G-X-X-G motif; other site 1193292001407 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1193292001408 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 1193292001409 23S rRNA interface [nucleotide binding]; other site 1193292001410 5S rRNA interface [nucleotide binding]; other site 1193292001411 putative antibiotic binding site [chemical binding]; other site 1193292001412 L25 interface [polypeptide binding]; other site 1193292001413 L27 interface [polypeptide binding]; other site 1193292001414 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 1193292001415 23S rRNA interface [nucleotide binding]; other site 1193292001416 putative translocon interaction site; other site 1193292001417 signal recognition particle (SRP54) interaction site; other site 1193292001418 L23 interface [polypeptide binding]; other site 1193292001419 trigger factor interaction site; other site 1193292001420 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1193292001421 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1193292001422 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1193292001423 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1193292001424 RNA binding site [nucleotide binding]; other site 1193292001425 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1193292001426 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1193292001427 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1193292001428 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1193292001429 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1193292001430 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1193292001431 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1193292001432 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1193292001433 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 1193292001434 23S rRNA interface [nucleotide binding]; other site 1193292001435 5S rRNA interface [nucleotide binding]; other site 1193292001436 L27 interface [polypeptide binding]; other site 1193292001437 L5 interface [polypeptide binding]; other site 1193292001438 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1193292001439 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1193292001440 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1193292001441 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 1193292001442 23S rRNA binding site [nucleotide binding]; other site 1193292001443 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1193292001444 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1193292001445 SecY translocase; Region: SecY; pfam00344 1193292001446 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1193292001447 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1193292001448 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 1193292001449 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1193292001450 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1193292001451 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 1193292001452 RNA binding surface [nucleotide binding]; other site 1193292001453 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1193292001454 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1193292001455 alphaNTD homodimer interface [polypeptide binding]; other site 1193292001456 alphaNTD - beta interaction site [polypeptide binding]; other site 1193292001457 alphaNTD - beta' interaction site [polypeptide binding]; other site 1193292001458 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1193292001459 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1193292001460 hypothetical protein; Provisional; Region: PRK10203 1193292001461 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1193292001462 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1193292001463 DNA binding residues [nucleotide binding] 1193292001464 dimer interface [polypeptide binding]; other site 1193292001465 metal binding site [ion binding]; metal-binding site 1193292001466 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1193292001467 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1193292001468 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1193292001469 TrkA-N domain; Region: TrkA_N; pfam02254 1193292001470 TrkA-C domain; Region: TrkA_C; pfam02080 1193292001471 TrkA-N domain; Region: TrkA_N; pfam02254 1193292001472 TrkA-C domain; Region: TrkA_C; pfam02080 1193292001473 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1193292001474 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 1193292001475 putative RNA binding site [nucleotide binding]; other site 1193292001476 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 1193292001477 S-adenosylmethionine binding site [chemical binding]; other site 1193292001478 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1193292001479 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1193292001480 putative active site [active] 1193292001481 substrate binding site [chemical binding]; other site 1193292001482 putative cosubstrate binding site; other site 1193292001483 catalytic site [active] 1193292001484 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1193292001485 substrate binding site [chemical binding]; other site 1193292001486 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 1193292001487 active site 1193292001488 catalytic residues [active] 1193292001489 metal binding site [ion binding]; metal-binding site 1193292001490 hypothetical protein; Provisional; Region: PRK10736 1193292001491 DNA protecting protein DprA; Region: dprA; TIGR00732 1193292001492 hypothetical protein; Validated; Region: PRK03430 1193292001493 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1193292001494 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1193292001495 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1193292001496 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1193292001497 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 1193292001498 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1193292001499 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1193292001500 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1193292001501 shikimate binding site; other site 1193292001502 NAD(P) binding site [chemical binding]; other site 1193292001503 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1193292001504 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1193292001505 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 1193292001506 trimer interface [polypeptide binding]; other site 1193292001507 putative metal binding site [ion binding]; other site 1193292001508 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1193292001509 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1193292001510 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1193292001511 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 1193292001512 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292001513 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292001514 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1193292001515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292001516 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1193292001517 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1193292001518 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1193292001519 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1193292001520 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 1193292001521 FMN binding site [chemical binding]; other site 1193292001522 active site 1193292001523 catalytic residues [active] 1193292001524 substrate binding site [chemical binding]; other site 1193292001525 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1193292001526 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 1193292001527 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1193292001528 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1193292001529 Na binding site [ion binding]; other site 1193292001530 hypothetical protein; Provisional; Region: PRK10633 1193292001531 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1193292001532 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1193292001533 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1193292001534 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1193292001535 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1193292001536 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 1193292001537 carboxyltransferase (CT) interaction site; other site 1193292001538 biotinylation site [posttranslational modification]; other site 1193292001539 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1193292001540 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 1193292001541 trimer interface [polypeptide binding]; other site 1193292001542 active site 1193292001543 dimer interface [polypeptide binding]; other site 1193292001544 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1193292001545 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1193292001546 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1193292001547 Moco binding site; other site 1193292001548 metal coordination site [ion binding]; other site 1193292001549 sensor protein PhoQ; Provisional; Region: PRK10815 1193292001550 regulatory protein CsrD; Provisional; Region: PRK11059 1193292001551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292001552 metal binding site [ion binding]; metal-binding site 1193292001553 active site 1193292001554 I-site; other site 1193292001555 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292001556 rod shape-determining protein MreB; Provisional; Region: PRK13927 1193292001557 MreB and similar proteins; Region: MreB_like; cd10225 1193292001558 nucleotide binding site [chemical binding]; other site 1193292001559 Mg binding site [ion binding]; other site 1193292001560 putative protofilament interaction site [polypeptide binding]; other site 1193292001561 RodZ interaction site [polypeptide binding]; other site 1193292001562 rod shape-determining protein MreC; Region: mreC; TIGR00219 1193292001563 rod shape-determining protein MreC; Region: MreC; pfam04085 1193292001564 rod shape-determining protein MreD; Provisional; Region: PRK11060 1193292001565 Maf-like protein; Region: Maf; pfam02545 1193292001566 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 1193292001567 active site 1193292001568 dimer interface [polypeptide binding]; other site 1193292001569 ribonuclease G; Provisional; Region: PRK11712 1193292001570 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 1193292001571 homodimer interface [polypeptide binding]; other site 1193292001572 oligonucleotide binding site [chemical binding]; other site 1193292001573 hypothetical protein; Provisional; Region: PRK10899 1193292001574 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1193292001575 protease TldD; Provisional; Region: tldD; PRK10735 1193292001576 transcriptional regulator; Provisional; Region: PRK10632 1193292001577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292001578 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292001579 putative effector binding pocket; other site 1193292001580 dimerization interface [polypeptide binding]; other site 1193292001581 efflux system membrane protein; Provisional; Region: PRK11594 1193292001582 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1193292001583 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292001584 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292001585 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 1193292001586 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1193292001587 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 1193292001588 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 1193292001589 RNAase interaction site [polypeptide binding]; other site 1193292001590 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292001591 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292001592 arginine repressor; Provisional; Region: PRK05066 1193292001593 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1193292001594 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1193292001595 malate dehydrogenase; Provisional; Region: PRK05086 1193292001596 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1193292001597 NAD binding site [chemical binding]; other site 1193292001598 dimerization interface [polypeptide binding]; other site 1193292001599 Substrate binding site [chemical binding]; other site 1193292001600 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1193292001601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292001602 DNA-binding site [nucleotide binding]; DNA binding site 1193292001603 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1193292001604 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292001605 DNA-binding site [nucleotide binding]; DNA binding site 1193292001606 FCD domain; Region: FCD; pfam07729 1193292001607 Citrate transporter; Region: CitMHS; pfam03600 1193292001608 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 1193292001609 transmembrane helices; other site 1193292001610 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 1193292001611 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 1193292001612 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1193292001613 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1193292001614 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1193292001615 active site 1193292001616 catalytic residues [active] 1193292001617 metal binding site [ion binding]; metal-binding site 1193292001618 homodimer binding site [polypeptide binding]; other site 1193292001619 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 1193292001620 carboxyltransferase (CT) interaction site; other site 1193292001621 biotinylation site [posttranslational modification]; other site 1193292001622 oxaloacetate decarboxylase subunit beta; Provisional; Region: PRK15476 1193292001623 Triphosphoribosyl-dephospho-CoA synthetase [Coenzyme metabolism]; Region: CitG; COG1767 1193292001624 serine endoprotease; Provisional; Region: PRK10898 1193292001625 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1193292001626 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 1193292001627 protein binding site [polypeptide binding]; other site 1193292001628 serine endoprotease; Provisional; Region: PRK10139 1193292001629 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1193292001630 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 1193292001631 protein binding site [polypeptide binding]; other site 1193292001632 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 1193292001633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1193292001634 hypothetical protein; Provisional; Region: PRK11677 1193292001635 Predicted ATPase [General function prediction only]; Region: COG1485 1193292001636 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 1193292001637 23S rRNA interface [nucleotide binding]; other site 1193292001638 L3 interface [polypeptide binding]; other site 1193292001639 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1193292001640 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1193292001641 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1193292001642 C-terminal domain interface [polypeptide binding]; other site 1193292001643 putative GSH binding site (G-site) [chemical binding]; other site 1193292001644 dimer interface [polypeptide binding]; other site 1193292001645 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1193292001646 dimer interface [polypeptide binding]; other site 1193292001647 N-terminal domain interface [polypeptide binding]; other site 1193292001648 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1193292001649 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1193292001650 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 1193292001651 putative active site cavity [active] 1193292001652 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1193292001653 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1193292001654 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292001655 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292001656 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1193292001657 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1193292001658 active site 1193292001659 dimer interface [polypeptide binding]; other site 1193292001660 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1193292001661 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1193292001662 active site 1193292001663 FMN binding site [chemical binding]; other site 1193292001664 substrate binding site [chemical binding]; other site 1193292001665 3Fe-4S cluster binding site [ion binding]; other site 1193292001666 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1193292001667 domain interface; other site 1193292001668 radical SAM protein, TIGR01212 family; Region: TIGR01212 1193292001669 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 1193292001670 FeS/SAM binding site; other site 1193292001671 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 1193292001672 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292001673 putative substrate translocation pore; other site 1193292001674 putative oxidoreductase; Provisional; Region: PRK10083 1193292001675 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1193292001676 putative NAD(P) binding site [chemical binding]; other site 1193292001677 catalytic Zn binding site [ion binding]; other site 1193292001678 structural Zn binding site [ion binding]; other site 1193292001679 mannonate dehydratase; Provisional; Region: PRK03906 1193292001680 mannonate dehydratase; Region: uxuA; TIGR00695 1193292001681 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1193292001682 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1193292001683 putative active site [active] 1193292001684 heme pocket [chemical binding]; other site 1193292001685 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 1193292001686 dimer interface [polypeptide binding]; other site 1193292001687 phosphorylation site [posttranslational modification] 1193292001688 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 1193292001689 ATP binding site [chemical binding]; other site 1193292001690 Mg2+ binding site [ion binding]; other site 1193292001691 G-X-G motif; other site 1193292001692 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 1193292001693 active site 1193292001694 phosphorylation site [posttranslational modification] 1193292001695 intermolecular recognition site; other site 1193292001696 dimerization interface [polypeptide binding]; other site 1193292001697 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1193292001698 putative binding surface; other site 1193292001699 active site 1193292001700 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1193292001701 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1193292001702 conserved cys residue [active] 1193292001703 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1193292001704 Transglycosylase; Region: Transgly; cl17702 1193292001705 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 1193292001706 dimerization domain swap beta strand [polypeptide binding]; other site 1193292001707 regulatory protein interface [polypeptide binding]; other site 1193292001708 active site 1193292001709 regulatory phosphorylation site [posttranslational modification]; other site 1193292001710 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1193292001711 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 1193292001712 active site 1193292001713 phosphorylation site [posttranslational modification] 1193292001714 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 1193292001715 30S subunit binding site; other site 1193292001716 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1193292001717 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1193292001718 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1193292001719 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1193292001720 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 1193292001721 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1193292001722 Walker A/P-loop; other site 1193292001723 ATP binding site [chemical binding]; other site 1193292001724 Q-loop/lid; other site 1193292001725 ABC transporter signature motif; other site 1193292001726 Walker B; other site 1193292001727 D-loop; other site 1193292001728 H-loop/switch region; other site 1193292001729 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 1193292001730 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1193292001731 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 1193292001732 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1193292001733 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 1193292001734 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1193292001735 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1193292001736 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1193292001737 putative active site [active] 1193292001738 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1193292001739 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1193292001740 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1193292001741 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1193292001742 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1193292001743 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1193292001744 Walker A/P-loop; other site 1193292001745 ATP binding site [chemical binding]; other site 1193292001746 Q-loop/lid; other site 1193292001747 ABC transporter signature motif; other site 1193292001748 Walker B; other site 1193292001749 D-loop; other site 1193292001750 H-loop/switch region; other site 1193292001751 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1193292001752 conserved hypothetical integral membrane protein; Region: TIGR00056 1193292001753 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1193292001754 mce related protein; Region: MCE; pfam02470 1193292001755 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 1193292001756 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1193292001757 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1193292001758 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 1193292001759 hinge; other site 1193292001760 active site 1193292001761 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 1193292001762 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1193292001763 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1193292001764 substrate binding pocket [chemical binding]; other site 1193292001765 chain length determination region; other site 1193292001766 substrate-Mg2+ binding site; other site 1193292001767 catalytic residues [active] 1193292001768 aspartate-rich region 1; other site 1193292001769 active site lid residues [active] 1193292001770 aspartate-rich region 2; other site 1193292001771 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1193292001772 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1193292001773 EamA-like transporter family; Region: EamA; pfam00892 1193292001774 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1193292001775 GTP1/OBG; Region: GTP1_OBG; pfam01018 1193292001776 Obg GTPase; Region: Obg; cd01898 1193292001777 G1 box; other site 1193292001778 GTP/Mg2+ binding site [chemical binding]; other site 1193292001779 Switch I region; other site 1193292001780 G2 box; other site 1193292001781 G3 box; other site 1193292001782 Switch II region; other site 1193292001783 G4 box; other site 1193292001784 G5 box; other site 1193292001785 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1193292001786 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1193292001787 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1193292001788 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1193292001789 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1193292001790 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1193292001791 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1193292001792 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 1193292001793 S-adenosylmethionine binding site [chemical binding]; other site 1193292001794 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1193292001795 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 1193292001796 Walker A motif; other site 1193292001797 ATP binding site [chemical binding]; other site 1193292001798 Walker B motif; other site 1193292001799 arginine finger; other site 1193292001800 Peptidase family M41; Region: Peptidase_M41; pfam01434 1193292001801 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 1193292001802 dihydropteroate synthase; Region: DHPS; TIGR01496 1193292001803 substrate binding pocket [chemical binding]; other site 1193292001804 dimer interface [polypeptide binding]; other site 1193292001805 inhibitor binding site; inhibition site 1193292001806 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1193292001807 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 1193292001808 active site 1193292001809 substrate binding site [chemical binding]; other site 1193292001810 metal binding site [ion binding]; metal-binding site 1193292001811 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1193292001812 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1193292001813 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 1193292001814 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1193292001815 ligand binding site [chemical binding]; other site 1193292001816 flexible hinge region; other site 1193292001817 argininosuccinate synthase; Validated; Region: PRK05370 1193292001818 argininosuccinate synthase; Provisional; Region: PRK13820 1193292001819 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1193292001820 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1193292001821 putative oligomer interface [polypeptide binding]; other site 1193292001822 putative RNA binding site [nucleotide binding]; other site 1193292001823 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1193292001824 NusA N-terminal domain; Region: NusA_N; pfam08529 1193292001825 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 1193292001826 RNA binding site [nucleotide binding]; other site 1193292001827 homodimer interface [polypeptide binding]; other site 1193292001828 NusA-like KH domain; Region: KH_5; pfam13184 1193292001829 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 1193292001830 G-X-X-G motif; other site 1193292001831 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1193292001832 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1193292001833 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1193292001834 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1193292001835 translation initiation factor IF-2; Region: IF-2; TIGR00487 1193292001836 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1193292001837 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1193292001838 G1 box; other site 1193292001839 putative GEF interaction site [polypeptide binding]; other site 1193292001840 GTP/Mg2+ binding site [chemical binding]; other site 1193292001841 Switch I region; other site 1193292001842 G2 box; other site 1193292001843 G3 box; other site 1193292001844 Switch II region; other site 1193292001845 G4 box; other site 1193292001846 G5 box; other site 1193292001847 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 1193292001848 Translation-initiation factor 2; Region: IF-2; pfam11987 1193292001849 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 1193292001850 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1193292001851 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1193292001852 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1193292001853 RNA binding site [nucleotide binding]; other site 1193292001854 active site 1193292001855 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1193292001856 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 1193292001857 16S/18S rRNA binding site [nucleotide binding]; other site 1193292001858 S13e-L30e interaction site [polypeptide binding]; other site 1193292001859 25S rRNA binding site [nucleotide binding]; other site 1193292001860 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1193292001861 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1193292001862 RNase E interface [polypeptide binding]; other site 1193292001863 trimer interface [polypeptide binding]; other site 1193292001864 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1193292001865 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1193292001866 RNase E interface [polypeptide binding]; other site 1193292001867 trimer interface [polypeptide binding]; other site 1193292001868 active site 1193292001869 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 1193292001870 putative nucleic acid binding region [nucleotide binding]; other site 1193292001871 G-X-X-G motif; other site 1193292001872 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 1193292001873 RNA binding site [nucleotide binding]; other site 1193292001874 domain interface; other site 1193292001875 lipoprotein NlpI; Provisional; Region: PRK11189 1193292001876 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 1193292001877 binding surface 1193292001878 TPR motif; other site 1193292001879 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1193292001880 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 1193292001881 ATP binding site [chemical binding]; other site 1193292001882 Mg++ binding site [ion binding]; other site 1193292001883 motif III; other site 1193292001884 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 1193292001885 nucleotide binding region [chemical binding]; other site 1193292001886 ATP-binding site [chemical binding]; other site 1193292001887 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1193292001888 putative RNA binding site [nucleotide binding]; other site 1193292001889 tryptophan permease; Provisional; Region: PRK10483 1193292001890 aromatic amino acid transport protein; Region: araaP; TIGR00837 1193292001891 hypothetical protein; Provisional; Region: PRK10508 1193292001892 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1193292001893 putative protease; Provisional; Region: PRK15447 1193292001894 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1193292001895 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1193292001896 Peptidase family U32; Region: Peptidase_U32; pfam01136 1193292001897 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1193292001898 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1193292001899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292001900 Coenzyme A binding pocket [chemical binding]; other site 1193292001901 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1193292001902 GIY-YIG motif/motif A; other site 1193292001903 putative active site [active] 1193292001904 putative metal binding site [ion binding]; other site 1193292001905 hypothetical protein; Provisional; Region: PRK03467 1193292001906 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1193292001907 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1193292001908 proposed catalytic triad [active] 1193292001909 conserved cys residue [active] 1193292001910 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1193292001911 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1193292001912 NAD binding site [chemical binding]; other site 1193292001913 active site 1193292001914 Predicted permease; Region: DUF318; pfam03773 1193292001915 outer membrane lipoprotein; Provisional; Region: PRK11023 1193292001916 BON domain; Region: BON; pfam04972 1193292001917 BON domain; Region: BON; pfam04972 1193292001918 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1193292001919 dimer interface [polypeptide binding]; other site 1193292001920 active site 1193292001921 hypothetical protein; Reviewed; Region: PRK12497 1193292001922 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1193292001923 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1193292001924 putative ligand binding site [chemical binding]; other site 1193292001925 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1193292001926 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1193292001927 putative SAM binding site [chemical binding]; other site 1193292001928 putative homodimer interface [polypeptide binding]; other site 1193292001929 Fic family protein [Function unknown]; Region: COG3177 1193292001930 Fic/DOC family; Region: Fic; pfam02661 1193292001931 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 1193292001932 putative DNA binding site [nucleotide binding]; other site 1193292001933 putative Zn2+ binding site [ion binding]; other site 1193292001934 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292001935 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292001936 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292001937 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 1193292001938 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1193292001939 putative NAD(P) binding site [chemical binding]; other site 1193292001940 catalytic Zn binding site [ion binding]; other site 1193292001941 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1193292001942 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1193292001943 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 1193292001944 active site 1193292001945 P-loop; other site 1193292001946 phosphorylation site [posttranslational modification] 1193292001947 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 1193292001948 active site 1193292001949 phosphorylation site [posttranslational modification] 1193292001950 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 1193292001951 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 1193292001952 active site 1193292001953 phosphorylation site [posttranslational modification] 1193292001954 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 1193292001955 dimerization domain swap beta strand [polypeptide binding]; other site 1193292001956 regulatory protein interface [polypeptide binding]; other site 1193292001957 active site 1193292001958 regulatory phosphorylation site [posttranslational modification]; other site 1193292001959 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1193292001960 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 1193292001961 active site 1193292001962 P-loop; other site 1193292001963 phosphorylation site [posttranslational modification] 1193292001964 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1193292001965 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 1193292001966 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1193292001967 putative substrate binding site [chemical binding]; other site 1193292001968 putative ATP binding site [chemical binding]; other site 1193292001969 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1193292001970 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1193292001971 intersubunit interface [polypeptide binding]; other site 1193292001972 active site 1193292001973 zinc binding site [ion binding]; other site 1193292001974 Na+ binding site [ion binding]; other site 1193292001975 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292001976 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292001977 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292001978 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292001979 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1193292001980 substrate binding site [chemical binding]; other site 1193292001981 ATP binding site [chemical binding]; other site 1193292001982 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1193292001983 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1193292001984 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1193292001985 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292001986 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 1193292001987 putative substrate translocation pore; other site 1193292001988 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 1193292001989 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 1193292001990 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1193292001991 glycerate kinase I; Provisional; Region: PRK10342 1193292001992 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 1193292001993 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1193292001994 dimer interface [polypeptide binding]; other site 1193292001995 Pirin-related protein [General function prediction only]; Region: COG1741 1193292001996 Pirin; Region: Pirin; pfam02678 1193292001997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292001998 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1193292001999 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 1193292002000 dimerization interface [polypeptide binding]; other site 1193292002001 Predicted membrane protein [Function unknown]; Region: COG3152 1193292002002 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1193292002003 Predicted membrane protein [Function unknown]; Region: COG2259 1193292002004 YqjK-like protein; Region: YqjK; pfam13997 1193292002005 Predicted membrane protein [Function unknown]; Region: COG5393 1193292002006 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1193292002007 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1193292002008 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 1193292002009 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1193292002010 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1193292002011 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 1193292002012 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292002013 DNA-binding site [nucleotide binding]; DNA binding site 1193292002014 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1193292002015 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292002016 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 1193292002017 putative substrate translocation pore; other site 1193292002018 Glucuronate isomerase; Region: UxaC; pfam02614 1193292002019 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1193292002020 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1193292002021 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1193292002022 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1193292002023 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1193292002024 serine/threonine transporter SstT; Provisional; Region: PRK13628 1193292002025 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1193292002026 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1193292002027 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292002028 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292002029 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1193292002030 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1193292002031 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 1193292002032 non-specific DNA binding site [nucleotide binding]; other site 1193292002033 salt bridge; other site 1193292002034 sequence-specific DNA binding site [nucleotide binding]; other site 1193292002035 Cupin domain; Region: Cupin_2; pfam07883 1193292002036 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1193292002037 B3/4 domain; Region: B3_4; pfam03483 1193292002038 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1193292002039 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 1193292002040 S-adenosylmethionine binding site [chemical binding]; other site 1193292002041 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1193292002042 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 1193292002043 active site 1193292002044 FMN binding site [chemical binding]; other site 1193292002045 2,4-decadienoyl-CoA binding site; other site 1193292002046 catalytic residue [active] 1193292002047 4Fe-4S cluster binding site [ion binding]; other site 1193292002048 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1193292002049 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292002050 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 1193292002051 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 1193292002052 putative N- and C-terminal domain interface [polypeptide binding]; other site 1193292002053 putative active site [active] 1193292002054 putative MgATP binding site [chemical binding]; other site 1193292002055 catalytic site [active] 1193292002056 metal binding site [ion binding]; metal-binding site 1193292002057 putative carbohydrate binding site [chemical binding]; other site 1193292002058 transcriptional regulator LsrR; Provisional; Region: PRK15418 1193292002059 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1193292002060 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 1193292002061 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292002062 Walker A/P-loop; other site 1193292002063 ATP binding site [chemical binding]; other site 1193292002064 Q-loop/lid; other site 1193292002065 ABC transporter signature motif; other site 1193292002066 Walker B; other site 1193292002067 D-loop; other site 1193292002068 H-loop/switch region; other site 1193292002069 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292002070 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292002071 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 1193292002072 TM-ABC transporter signature motif; other site 1193292002073 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 1193292002074 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292002075 TM-ABC transporter signature motif; other site 1193292002076 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 1193292002077 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1193292002078 ligand binding site [chemical binding]; other site 1193292002079 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1193292002080 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1193292002081 putative active site; other site 1193292002082 catalytic residue [active] 1193292002083 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 1193292002084 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 1193292002085 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 1193292002086 inhibitor-cofactor binding pocket; inhibition site 1193292002087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002088 catalytic residue [active] 1193292002089 Predicted transcriptional regulators [Transcription]; Region: COG1695 1193292002090 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1193292002091 GLE1-like protein; Region: GLE1; pfam07817 1193292002092 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1193292002093 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1193292002094 FAD binding pocket [chemical binding]; other site 1193292002095 FAD binding motif [chemical binding]; other site 1193292002096 phosphate binding motif [ion binding]; other site 1193292002097 NAD binding pocket [chemical binding]; other site 1193292002098 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 1193292002099 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1193292002100 DAK2 domain; Region: Dak2; pfam02734 1193292002101 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 1193292002102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 1193292002103 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 1193292002104 dimerization domain swap beta strand [polypeptide binding]; other site 1193292002105 regulatory protein interface [polypeptide binding]; other site 1193292002106 active site 1193292002107 regulatory phosphorylation site [posttranslational modification]; other site 1193292002108 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1193292002109 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1193292002110 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 1193292002111 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1193292002112 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1193292002113 dimer interface [polypeptide binding]; other site 1193292002114 active site 1193292002115 metal binding site [ion binding]; metal-binding site 1193292002116 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 1193292002117 PAS domain; Region: PAS; smart00091 1193292002118 putative active site [active] 1193292002119 heme pocket [chemical binding]; other site 1193292002120 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 1193292002121 Walker A motif; other site 1193292002122 ATP binding site [chemical binding]; other site 1193292002123 Walker B motif; other site 1193292002124 arginine finger; other site 1193292002125 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1193292002126 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1193292002127 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 1193292002128 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1193292002129 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1193292002130 dimer interface [polypeptide binding]; other site 1193292002131 active site 1193292002132 metal binding site [ion binding]; metal-binding site 1193292002133 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1193292002134 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 1193292002135 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 1193292002136 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 1193292002137 alpha-beta subunit interface [polypeptide binding]; other site 1193292002138 alpha-gamma subunit interface [polypeptide binding]; other site 1193292002139 active site 1193292002140 substrate and K+ binding site; other site 1193292002141 K+ binding site [ion binding]; other site 1193292002142 cobalamin binding site [chemical binding]; other site 1193292002143 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 1193292002144 Dehydratase small subunit; Region: Dehydratase_SU; pfam02287 1193292002145 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 1193292002146 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1193292002147 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1193292002148 amphipathic channel; other site 1193292002149 Asn-Pro-Ala signature motifs; other site 1193292002150 acid-resistance protein; Provisional; Region: hdeB; PRK11566 1193292002151 acid-resistance membrane protein; Provisional; Region: PRK10209 1193292002152 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1193292002153 hypothetical protein; Provisional; Region: PRK10316 1193292002154 YfdX protein; Region: YfdX; pfam10938 1193292002155 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1193292002156 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 1193292002157 substrate binding pocket [chemical binding]; other site 1193292002158 membrane-bound complex binding site; other site 1193292002159 hinge residues; other site 1193292002160 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 1193292002161 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292002162 substrate binding pocket [chemical binding]; other site 1193292002163 membrane-bound complex binding site; other site 1193292002164 hinge residues; other site 1193292002165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1193292002166 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 1193292002167 dimer interface [polypeptide binding]; other site 1193292002168 phosphorylation site [posttranslational modification] 1193292002169 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 1193292002170 ATP binding site [chemical binding]; other site 1193292002171 Mg2+ binding site [ion binding]; other site 1193292002172 G-X-G motif; other site 1193292002173 Response regulator receiver domain; Region: Response_reg; pfam00072 1193292002174 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 1193292002175 active site 1193292002176 phosphorylation site [posttranslational modification] 1193292002177 intermolecular recognition site; other site 1193292002178 dimerization interface [polypeptide binding]; other site 1193292002179 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1193292002180 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1193292002181 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 1193292002182 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 1193292002183 active site 1193292002184 phosphorylation site [posttranslational modification] 1193292002185 intermolecular recognition site; other site 1193292002186 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 1193292002187 DNA binding residues [nucleotide binding] 1193292002188 dimerization interface [polypeptide binding]; other site 1193292002189 HdeA/HdeB family; Region: HdeA; pfam06411 1193292002190 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1193292002191 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1193292002192 putative active site [active] 1193292002193 putative NTP binding site [chemical binding]; other site 1193292002194 putative nucleic acid binding site [nucleotide binding]; other site 1193292002195 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 1193292002196 active site 1193292002197 SUMO-1 interface [polypeptide binding]; other site 1193292002198 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1193292002199 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1193292002200 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1193292002201 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1193292002202 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1193292002203 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1193292002204 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 1193292002205 DNA binding residues [nucleotide binding] 1193292002206 DNA primase; Validated; Region: dnaG; PRK05667 1193292002207 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1193292002208 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1193292002209 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 1193292002210 active site 1193292002211 metal binding site [ion binding]; metal-binding site 1193292002212 interdomain interaction site; other site 1193292002213 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1193292002214 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1193292002215 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1193292002216 UGMP family protein; Validated; Region: PRK09604 1193292002217 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1193292002218 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1193292002219 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1193292002220 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 1193292002221 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1193292002222 UreF; Region: UreF; pfam01730 1193292002223 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1193292002224 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 1193292002225 dimer interface [polypeptide binding]; other site 1193292002226 catalytic residues [active] 1193292002227 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1193292002228 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 1193292002229 subunit interactions [polypeptide binding]; other site 1193292002230 active site 1193292002231 flap region; other site 1193292002232 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 1193292002233 gamma-beta subunit interface [polypeptide binding]; other site 1193292002234 alpha-beta subunit interface [polypeptide binding]; other site 1193292002235 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 1193292002236 alpha-gamma subunit interface [polypeptide binding]; other site 1193292002237 beta-gamma subunit interface [polypeptide binding]; other site 1193292002238 UreD urease accessory protein; Region: UreD; cl00530 1193292002239 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1193292002240 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 1193292002241 homooctamer interface [polypeptide binding]; other site 1193292002242 active site 1193292002243 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1193292002244 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1193292002245 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1193292002246 active site 1193292002247 NTP binding site [chemical binding]; other site 1193292002248 metal binding triad [ion binding]; metal-binding site 1193292002249 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1193292002250 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292002251 Zn2+ binding site [ion binding]; other site 1193292002252 Mg2+ binding site [ion binding]; other site 1193292002253 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1193292002254 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1193292002255 putative active site [active] 1193292002256 putative metal binding residues [ion binding]; other site 1193292002257 signature motif; other site 1193292002258 putative triphosphate binding site [ion binding]; other site 1193292002259 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1193292002260 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1193292002261 metal binding triad; other site 1193292002262 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1193292002263 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1193292002264 metal binding triad; other site 1193292002265 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1193292002266 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1193292002267 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1193292002268 putative ribose interaction site [chemical binding]; other site 1193292002269 putative ADP binding site [chemical binding]; other site 1193292002270 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1193292002271 active site 1193292002272 nucleotide binding site [chemical binding]; other site 1193292002273 HIGH motif; other site 1193292002274 KMSKS motif; other site 1193292002275 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 1193292002276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1193292002277 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1193292002278 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1193292002279 zinc transporter ZupT; Provisional; Region: PRK04201 1193292002280 ZIP Zinc transporter; Region: Zip; pfam02535 1193292002281 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1193292002282 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1193292002283 putative active site [active] 1193292002284 metal binding site [ion binding]; metal-binding site 1193292002285 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1193292002286 hypothetical protein; Provisional; Region: PRK11653 1193292002287 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1193292002288 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1193292002289 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 1193292002290 dimer interface [polypeptide binding]; other site 1193292002291 ADP-ribose binding site [chemical binding]; other site 1193292002292 active site 1193292002293 nudix motif; other site 1193292002294 metal binding site [ion binding]; metal-binding site 1193292002295 putative dehydrogenase; Provisional; Region: PRK11039 1193292002296 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1193292002297 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1193292002298 active site 1193292002299 metal binding site [ion binding]; metal-binding site 1193292002300 hexamer interface [polypeptide binding]; other site 1193292002301 esterase YqiA; Provisional; Region: PRK11071 1193292002302 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1193292002303 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1193292002304 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 1193292002305 ATP binding site [chemical binding]; other site 1193292002306 Mg2+ binding site [ion binding]; other site 1193292002307 G-X-G motif; other site 1193292002308 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 1193292002309 anchoring element; other site 1193292002310 dimer interface [polypeptide binding]; other site 1193292002311 ATP binding site [chemical binding]; other site 1193292002312 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1193292002313 active site 1193292002314 metal binding site [ion binding]; metal-binding site 1193292002315 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1193292002316 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1193292002317 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1193292002318 sensor protein QseC; Provisional; Region: PRK10337 1193292002319 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 1193292002320 dimer interface [polypeptide binding]; other site 1193292002321 phosphorylation site [posttranslational modification] 1193292002322 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 1193292002323 ATP binding site [chemical binding]; other site 1193292002324 Mg2+ binding site [ion binding]; other site 1193292002325 G-X-G motif; other site 1193292002326 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 1193292002327 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 1193292002328 active site 1193292002329 phosphorylation site [posttranslational modification] 1193292002330 intermolecular recognition site; other site 1193292002331 dimerization interface [polypeptide binding]; other site 1193292002332 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 1193292002333 DNA binding site [nucleotide binding] 1193292002334 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 1193292002335 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292002336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292002337 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1193292002338 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 1193292002339 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 1193292002340 CAP-like domain; other site 1193292002341 active site 1193292002342 primary dimer interface [polypeptide binding]; other site 1193292002343 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1193292002344 putative acyl-acceptor binding pocket; other site 1193292002345 FtsI repressor; Provisional; Region: PRK10883 1193292002346 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1193292002347 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1193292002348 hypothetical protein; Provisional; Region: PRK01254 1193292002349 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1193292002350 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1193292002351 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292002352 Coenzyme A binding pocket [chemical binding]; other site 1193292002353 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 1193292002354 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292002355 active site 1193292002356 catalytic tetrad [active] 1193292002357 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1193292002358 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1193292002359 dimer interface [polypeptide binding]; other site 1193292002360 active site 1193292002361 metal binding site [ion binding]; metal-binding site 1193292002362 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1193292002363 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1193292002364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292002365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292002366 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1193292002367 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1193292002368 cystathionine beta-lyase; Provisional; Region: PRK08114 1193292002369 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1193292002370 homodimer interface [polypeptide binding]; other site 1193292002371 substrate-cofactor binding pocket; other site 1193292002372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002373 catalytic residue [active] 1193292002374 biopolymer transport protein ExbB; Provisional; Region: PRK10414 1193292002375 biopolymer transport protein ExbD; Provisional; Region: PRK11267 1193292002376 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1193292002377 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1193292002378 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1193292002379 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1193292002380 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 1193292002381 active site 1193292002382 hypothetical protein; Provisional; Region: PRK05208 1193292002383 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1193292002384 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1193292002385 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 1193292002386 putative S-transferase; Provisional; Region: PRK11752 1193292002387 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1193292002388 C-terminal domain interface [polypeptide binding]; other site 1193292002389 GSH binding site (G-site) [chemical binding]; other site 1193292002390 dimer interface [polypeptide binding]; other site 1193292002391 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1193292002392 dimer interface [polypeptide binding]; other site 1193292002393 N-terminal domain interface [polypeptide binding]; other site 1193292002394 active site 1193292002395 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1193292002396 Thioredoxin; Region: Thioredoxin_4; cl17273 1193292002397 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 1193292002398 CHAP domain; Region: CHAP; pfam05257 1193292002399 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1193292002400 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1193292002401 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 1193292002402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002403 homodimer interface [polypeptide binding]; other site 1193292002404 catalytic residue [active] 1193292002405 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 1193292002406 putative NAD(P) binding site [chemical binding]; other site 1193292002407 homodimer interface [polypeptide binding]; other site 1193292002408 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292002409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292002410 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 1193292002411 putative effector binding pocket; other site 1193292002412 putative dimerization interface [polypeptide binding]; other site 1193292002413 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1193292002414 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1193292002415 homodimer interface [polypeptide binding]; other site 1193292002416 substrate-cofactor binding pocket; other site 1193292002417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002418 catalytic residue [active] 1193292002419 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1193292002420 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 1193292002421 dimer interface [polypeptide binding]; other site 1193292002422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002423 catalytic residue [active] 1193292002424 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1193292002425 FOG: CBS domain [General function prediction only]; Region: COG0517 1193292002426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 1193292002427 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292002428 Coenzyme A binding pocket [chemical binding]; other site 1193292002429 Transposase; Region: HTH_Tnp_1; cl17663 1193292002430 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1193292002431 ornithine decarboxylase; Provisional; Region: PRK13578 1193292002432 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1193292002433 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1193292002434 homodimer interface [polypeptide binding]; other site 1193292002435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002436 catalytic residue [active] 1193292002437 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1193292002438 nucleoside transporter; Region: 2A0110; TIGR00889 1193292002439 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1193292002440 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1193292002441 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 1193292002442 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1193292002443 catalytic residue [active] 1193292002444 adenine DNA glycosylase; Provisional; Region: PRK10880 1193292002445 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1193292002446 minor groove reading motif; other site 1193292002447 helix-hairpin-helix signature motif; other site 1193292002448 substrate binding pocket [chemical binding]; other site 1193292002449 active site 1193292002450 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1193292002451 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1193292002452 DNA binding and oxoG recognition site [nucleotide binding] 1193292002453 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1193292002454 hypothetical protein; Provisional; Region: PRK11702 1193292002455 hypothetical protein; Provisional; Region: PRK10626 1193292002456 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1193292002457 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1193292002458 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292002459 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 1193292002460 TM-ABC transporter signature motif; other site 1193292002461 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292002462 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292002463 Walker A/P-loop; other site 1193292002464 ATP binding site [chemical binding]; other site 1193292002465 Q-loop/lid; other site 1193292002466 ABC transporter signature motif; other site 1193292002467 Walker B; other site 1193292002468 D-loop; other site 1193292002469 H-loop/switch region; other site 1193292002470 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1193292002471 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1193292002472 putative ligand binding site [chemical binding]; other site 1193292002473 HemN family oxidoreductase; Provisional; Region: PRK05660 1193292002474 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 1193292002475 FeS/SAM binding site; other site 1193292002476 HemN C-terminal domain; Region: HemN_C; pfam06969 1193292002477 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 1193292002478 active site 1193292002479 dimerization interface [polypeptide binding]; other site 1193292002480 hypothetical protein; Validated; Region: PRK05090 1193292002481 YGGT family; Region: YGGT; pfam02325 1193292002482 YGGT family; Region: YGGT; pfam02325 1193292002483 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1193292002484 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1193292002485 catalytic residue [active] 1193292002486 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1193292002487 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1193292002488 Walker A motif; other site 1193292002489 ATP binding site [chemical binding]; other site 1193292002490 Walker B motif; other site 1193292002491 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 1193292002492 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 1193292002493 DNA binding residues [nucleotide binding] 1193292002494 dimerization interface [polypeptide binding]; other site 1193292002495 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1193292002496 hypothetical protein; Validated; Region: PRK00228 1193292002497 glutathione synthetase; Provisional; Region: PRK05246 1193292002498 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1193292002499 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1193292002500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1193292002501 RNA methyltransferase, RsmE family; Region: TIGR00046 1193292002502 DNA-specific endonuclease I; Provisional; Region: PRK15137 1193292002503 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1193292002504 hypothetical protein; Provisional; Region: PRK04860 1193292002505 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1193292002506 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1193292002507 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 1193292002508 putative substrate translocation pore; other site 1193292002509 Bacterial protein of unknown function (DUF899); Region: DUF899; cl17828 1193292002510 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 1193292002511 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1193292002512 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1193292002513 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1193292002514 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1193292002515 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 1193292002516 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1193292002517 dimer interface [polypeptide binding]; other site 1193292002518 active site 1193292002519 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1193292002520 catalytic residues [active] 1193292002521 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1193292002522 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1193292002523 agmatinase; Region: agmatinase; TIGR01230 1193292002524 oligomer interface [polypeptide binding]; other site 1193292002525 putative active site [active] 1193292002526 Mn binding site [ion binding]; other site 1193292002527 outer membrane porin, OprD family; Region: OprD; pfam03573 1193292002528 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1193292002529 transketolase; Reviewed; Region: PRK12753 1193292002530 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 1193292002531 TPP-binding site [chemical binding]; other site 1193292002532 dimer interface [polypeptide binding]; other site 1193292002533 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 1193292002534 PYR/PP interface [polypeptide binding]; other site 1193292002535 dimer interface [polypeptide binding]; other site 1193292002536 TPP binding site [chemical binding]; other site 1193292002537 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1193292002538 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1193292002539 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1193292002540 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1193292002541 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 1193292002542 Phosphoglycerate kinase; Region: PGK; pfam00162 1193292002543 substrate binding site [chemical binding]; other site 1193292002544 hinge regions; other site 1193292002545 ADP binding site [chemical binding]; other site 1193292002546 catalytic site [active] 1193292002547 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1193292002548 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1193292002549 active site 1193292002550 intersubunit interface [polypeptide binding]; other site 1193292002551 zinc binding site [ion binding]; other site 1193292002552 Na+ binding site [ion binding]; other site 1193292002553 mechanosensitive channel MscS; Provisional; Region: PRK10334 1193292002554 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1193292002555 arginine exporter protein; Provisional; Region: PRK09304 1193292002556 oxidative stress defense protein; Provisional; Region: PRK11087 1193292002557 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1193292002558 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1193292002559 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292002560 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 1193292002561 putative dimerization interface [polypeptide binding]; other site 1193292002562 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1193292002563 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292002564 active site 1193292002565 dimer interface [polypeptide binding]; other site 1193292002566 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1193292002567 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1193292002568 ligand binding site [chemical binding]; other site 1193292002569 NAD binding site [chemical binding]; other site 1193292002570 tetramer interface [polypeptide binding]; other site 1193292002571 catalytic site [active] 1193292002572 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1193292002573 L-serine binding site [chemical binding]; other site 1193292002574 ACT domain interface; other site 1193292002575 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 1193292002576 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1193292002577 Cell division protein ZapA; Region: ZapA; cl01146 1193292002578 hypothetical protein; Reviewed; Region: PRK01736 1193292002579 proline aminopeptidase P II; Provisional; Region: PRK10879 1193292002580 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1193292002581 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1193292002582 active site 1193292002583 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1193292002584 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1193292002585 oxidoreductase; Provisional; Region: PRK08013 1193292002586 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1193292002587 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1193292002588 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1193292002589 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 1193292002590 lipoyl attachment site [posttranslational modification]; other site 1193292002591 glycine dehydrogenase; Provisional; Region: PRK05367 1193292002592 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 1193292002593 tetramer interface [polypeptide binding]; other site 1193292002594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002595 catalytic residue [active] 1193292002596 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 1193292002597 tetramer interface [polypeptide binding]; other site 1193292002598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002599 catalytic residue [active] 1193292002600 classical (c) SDRs; Region: SDR_c; cd05233 1193292002601 NAD(P) binding site [chemical binding]; other site 1193292002602 active site 1193292002603 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 1193292002604 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1193292002605 catalytic residues [active] 1193292002606 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 1193292002607 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1193292002608 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1193292002609 catalytic residues [active] 1193292002610 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1193292002611 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1193292002612 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1193292002613 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1193292002614 DsbD alpha interface [polypeptide binding]; other site 1193292002615 catalytic residues [active] 1193292002616 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 1193292002617 beta-galactosidase; Region: BGL; TIGR03356 1193292002618 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1193292002619 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292002620 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1193292002621 putative active site [active] 1193292002622 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1193292002623 hemolysin; Provisional; Region: PRK15087 1193292002624 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1193292002625 putative global regulator; Reviewed; Region: PRK09559 1193292002626 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1193292002627 hypothetical protein; Provisional; Region: PRK10878 1193292002628 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 1193292002629 flavodoxin FldB; Provisional; Region: PRK12359 1193292002630 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1193292002631 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 1193292002632 active site 1193292002633 Int/Topo IB signature motif; other site 1193292002634 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1193292002635 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1193292002636 dimerization domain [polypeptide binding]; other site 1193292002637 dimer interface [polypeptide binding]; other site 1193292002638 catalytic residues [active] 1193292002639 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1193292002640 DHH family; Region: DHH; pfam01368 1193292002641 DHHA1 domain; Region: DHHA1; pfam02272 1193292002642 peptide chain release factor 2; Provisional; Region: PRK08787 1193292002643 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1193292002644 RF-1 domain; Region: RF-1; pfam00472 1193292002645 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 1193292002646 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 1193292002647 dimer interface [polypeptide binding]; other site 1193292002648 putative anticodon binding site; other site 1193292002649 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1193292002650 motif 1; other site 1193292002651 active site 1193292002652 motif 2; other site 1193292002653 motif 3; other site 1193292002654 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 1193292002655 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 1193292002656 active site 1193292002657 metal binding site [ion binding]; metal-binding site 1193292002658 nudix motif; other site 1193292002659 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292002660 Peptidase family M23; Region: Peptidase_M23; pfam01551 1193292002661 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 1193292002662 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292002663 putative substrate translocation pore; other site 1193292002664 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292002665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292002666 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 1193292002667 putative substrate binding pocket [chemical binding]; other site 1193292002668 putative dimerization interface [polypeptide binding]; other site 1193292002669 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1193292002670 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1193292002671 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 1193292002672 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292002673 active site 1193292002674 catalytic tetrad [active] 1193292002675 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1193292002676 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292002677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292002678 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 1193292002679 dimerization interface [polypeptide binding]; other site 1193292002680 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 1193292002681 YCII-related domain; Region: YCII; cl00999 1193292002682 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 1193292002683 dimerization interface [polypeptide binding]; other site 1193292002684 putative DNA binding site [nucleotide binding]; other site 1193292002685 putative Zn2+ binding site [ion binding]; other site 1193292002686 arsenical pump membrane protein; Provisional; Region: PRK15445 1193292002687 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1193292002688 transmembrane helices; other site 1193292002689 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 1193292002690 ArsC family; Region: ArsC; pfam03960 1193292002691 catalytic residues [active] 1193292002692 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 1193292002693 putative substrate translocation pore; other site 1193292002694 POT family; Region: PTR2; cl17359 1193292002695 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 1193292002696 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 1193292002697 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 1193292002698 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1193292002699 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292002700 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292002701 Uncharacterized conserved protein [Function unknown]; Region: COG3592 1193292002702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292002703 Coenzyme A binding pocket [chemical binding]; other site 1193292002704 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; cl17315 1193292002705 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292002706 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 1193292002707 mannosyl binding site [chemical binding]; other site 1193292002708 Fimbrial protein; Region: Fimbrial; cl01416 1193292002709 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292002710 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292002711 outer membrane usher protein; Provisional; Region: PRK15193 1193292002712 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292002713 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292002714 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292002715 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 1193292002716 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292002717 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292002718 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292002719 Fimbrial protein; Region: Fimbrial; cl01416 1193292002720 tyrosine recombinase; Provisional; Region: PRK09871 1193292002721 active site 1193292002722 DNA binding site [nucleotide binding] 1193292002723 Int/Topo IB signature motif; other site 1193292002724 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 1193292002725 DNA binding site [nucleotide binding] 1193292002726 active site 1193292002727 Int/Topo IB signature motif; other site 1193292002728 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1193292002729 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1193292002730 MarR family; Region: MarR; pfam01047 1193292002731 MarR family; Region: MarR_2; cl17246 1193292002732 EamA-like transporter family; Region: EamA; pfam00892 1193292002733 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1193292002734 EamA-like transporter family; Region: EamA; pfam00892 1193292002735 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292002736 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292002737 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1193292002738 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292002739 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292002740 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1193292002741 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292002742 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292002743 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292002744 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292002745 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292002746 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292002747 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 1193292002748 DNA binding residues [nucleotide binding] 1193292002749 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1193292002750 PilZ domain; Region: PilZ; pfam07238 1193292002751 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 1193292002752 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292002753 active site 1193292002754 catalytic tetrad [active] 1193292002755 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1193292002756 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1193292002757 Predicted membrane protein [Function unknown]; Region: COG4125 1193292002758 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1193292002759 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1193292002760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292002761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292002762 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 1193292002763 dimerization interface [polypeptide binding]; other site 1193292002764 putative acyltransferase; Provisional; Region: PRK05790 1193292002765 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1193292002766 dimer interface [polypeptide binding]; other site 1193292002767 active site 1193292002768 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 1193292002769 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1193292002770 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1193292002771 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 1193292002772 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1193292002773 NADP binding site [chemical binding]; other site 1193292002774 homodimer interface [polypeptide binding]; other site 1193292002775 active site 1193292002776 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1193292002777 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 1193292002778 putative substrate translocation pore; other site 1193292002779 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 1193292002780 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292002781 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292002782 DNA binding site [nucleotide binding] 1193292002783 domain linker motif; other site 1193292002784 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 1193292002785 putative dimerization interface [polypeptide binding]; other site 1193292002786 putative ligand binding site [chemical binding]; other site 1193292002787 galactoside permease; Reviewed; Region: lacY; PRK09528 1193292002788 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 1193292002789 putative substrate translocation pore; other site 1193292002790 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1193292002791 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1193292002792 substrate binding [chemical binding]; other site 1193292002793 active site 1193292002794 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1193292002795 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 1193292002796 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1193292002797 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1193292002798 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1193292002799 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1193292002800 Walker A/P-loop; other site 1193292002801 ATP binding site [chemical binding]; other site 1193292002802 Q-loop/lid; other site 1193292002803 ABC transporter signature motif; other site 1193292002804 Walker B; other site 1193292002805 D-loop; other site 1193292002806 H-loop/switch region; other site 1193292002807 TOBE domain; Region: TOBE; pfam03459 1193292002808 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1193292002809 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 1193292002810 dimer interface [polypeptide binding]; other site 1193292002811 conserved gate region; other site 1193292002812 putative PBP binding loops; other site 1193292002813 ABC-ATPase subunit interface; other site 1193292002814 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 1193292002815 dimer interface [polypeptide binding]; other site 1193292002816 conserved gate region; other site 1193292002817 putative PBP binding loops; other site 1193292002818 ABC-ATPase subunit interface; other site 1193292002819 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1193292002820 putative racemase; Provisional; Region: PRK10200 1193292002821 aspartate racemase; Region: asp_race; TIGR00035 1193292002822 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1193292002823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292002824 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 1193292002825 dimerization interface [polypeptide binding]; other site 1193292002826 diaminopimelate decarboxylase; Provisional; Region: PRK11165 1193292002827 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1193292002828 active site 1193292002829 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1193292002830 substrate binding site [chemical binding]; other site 1193292002831 catalytic residues [active] 1193292002832 dimer interface [polypeptide binding]; other site 1193292002833 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292002834 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292002835 DNA binding site [nucleotide binding] 1193292002836 domain linker motif; other site 1193292002837 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1193292002838 dimerization interface (closed form) [polypeptide binding]; other site 1193292002839 ligand binding site [chemical binding]; other site 1193292002840 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1193292002841 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1193292002842 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1193292002843 beta-galactosidase; Region: BGL; TIGR03356 1193292002844 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1193292002845 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292002846 DNA-binding site [nucleotide binding]; DNA binding site 1193292002847 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1193292002848 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292002849 Coenzyme A binding pocket [chemical binding]; other site 1193292002850 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 1193292002851 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292002852 DNA binding site [nucleotide binding] 1193292002853 domain linker motif; other site 1193292002854 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1193292002855 dimerization interface (closed form) [polypeptide binding]; other site 1193292002856 ligand binding site [chemical binding]; other site 1193292002857 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 1193292002858 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1193292002859 putative acyl-acceptor binding pocket; other site 1193292002860 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1193292002861 acyl-activating enzyme (AAE) consensus motif; other site 1193292002862 putative AMP binding site [chemical binding]; other site 1193292002863 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1193292002864 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 1193292002865 putative substrate translocation pore; other site 1193292002866 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 1193292002867 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292002868 active site 1193292002869 catalytic tetrad [active] 1193292002870 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1193292002871 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1193292002872 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1193292002873 putative DNA-binding cleft [nucleotide binding]; other site 1193292002874 putative DNA clevage site; other site 1193292002875 molecular lever; other site 1193292002876 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1193292002877 putative active site [active] 1193292002878 Ap4A binding site [chemical binding]; other site 1193292002879 nudix motif; other site 1193292002880 putative metal binding site [ion binding]; other site 1193292002881 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1193292002882 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1193292002883 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1193292002884 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1193292002885 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1193292002886 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1193292002887 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1193292002888 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 1193292002889 dimerization interface [polypeptide binding]; other site 1193292002890 active site 1193292002891 hypothetical protein; Provisional; Region: PRK10506 1193292002892 hypothetical protein; Provisional; Region: PRK10557 1193292002893 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1193292002894 hypothetical protein; Provisional; Region: PRK11521 1193292002895 hypothetical protein; Provisional; Region: PRK10332 1193292002896 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 1193292002897 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1193292002898 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 1193292002899 protease3; Provisional; Region: PRK15101 1193292002900 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1193292002901 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1193292002902 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1193292002903 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1193292002904 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1193292002905 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 1193292002906 Family description; Region: UvrD_C_2; pfam13538 1193292002907 N-acetylglutamate synthase; Validated; Region: PRK05279 1193292002908 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1193292002909 putative feedback inhibition sensing region; other site 1193292002910 putative nucleotide binding site [chemical binding]; other site 1193292002911 putative substrate binding site [chemical binding]; other site 1193292002912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292002913 Coenzyme A binding pocket [chemical binding]; other site 1193292002914 AMIN domain; Region: AMIN; pfam11741 1193292002915 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 1193292002916 active site 1193292002917 metal binding site [ion binding]; metal-binding site 1193292002918 threonine-phosphate decarboxylase; Provisional; Region: PRK08056 1193292002919 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 1193292002920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292002921 homodimer interface [polypeptide binding]; other site 1193292002922 catalytic residue [active] 1193292002923 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 1193292002924 propionate kinase; Reviewed; Region: PRK12397 1193292002925 propionate/acetate kinase; Provisional; Region: PRK12379 1193292002926 Ethanolamine utilisation - propanediol utilisation; Region: PduV-EutP; pfam10662 1193292002927 G1 box; other site 1193292002928 GTP/Mg2+ binding site [chemical binding]; other site 1193292002929 G2 box; other site 1193292002930 G3 box; other site 1193292002931 Switch II region; other site 1193292002932 G4 box; other site 1193292002933 G5 box; other site 1193292002934 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 1193292002935 putative hexamer interface [polypeptide binding]; other site 1193292002936 putative hexagonal pore; other site 1193292002937 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 1193292002938 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 1193292002939 putative hexamer interface [polypeptide binding]; other site 1193292002940 putative hexagonal pore; other site 1193292002941 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1193292002942 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 1193292002943 putative hexamer interface [polypeptide binding]; other site 1193292002944 putative hexagonal pore; other site 1193292002945 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 1193292002946 SLBB domain; Region: SLBB; pfam10531 1193292002947 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1193292002948 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 1193292002949 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 1193292002950 putative catalytic cysteine [active] 1193292002951 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1193292002952 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1193292002953 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1193292002954 Hexamer/Pentamer interface [polypeptide binding]; other site 1193292002955 central pore; other site 1193292002956 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 1193292002957 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 1193292002958 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1193292002959 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1193292002960 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1193292002961 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1193292002962 Hexamer interface [polypeptide binding]; other site 1193292002963 Hexagonal pore residue; other site 1193292002964 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1193292002965 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1193292002966 Hexamer interface [polypeptide binding]; other site 1193292002967 Putative hexagonal pore residue; other site 1193292002968 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 1193292002969 Cell division protein FtsA; Region: FtsA; cl17206 1193292002970 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 1193292002971 Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduE; COG4910 1193292002972 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 1193292002973 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 1193292002974 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 1193292002975 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 1193292002976 alpha-beta subunit interface [polypeptide binding]; other site 1193292002977 alpha-gamma subunit interface [polypeptide binding]; other site 1193292002978 active site 1193292002979 substrate and K+ binding site; other site 1193292002980 K+ binding site [ion binding]; other site 1193292002981 cobalamin binding site [chemical binding]; other site 1193292002982 propanediol utilization protein PduB; Provisional; Region: PRK15415 1193292002983 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 1193292002984 putative hexamer interface [polypeptide binding]; other site 1193292002985 putative hexagonal pore; other site 1193292002986 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 1193292002987 putative hexamer interface [polypeptide binding]; other site 1193292002988 putative hexagonal pore; other site 1193292002989 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1193292002990 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1193292002991 Hexamer interface [polypeptide binding]; other site 1193292002992 Putative hexagonal pore residue; other site 1193292002993 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1193292002994 amphipathic channel; other site 1193292002995 Asn-Pro-Ala signature motifs; other site 1193292002996 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1193292002997 Sensory domain found in PocR; Region: PocR; pfam10114 1193292002998 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1193292002999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292003000 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292003001 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1193292003002 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1193292003003 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1193292003004 catalytic triad [active] 1193292003005 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1193292003006 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 1193292003007 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1193292003008 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1193292003009 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1193292003010 active site 1193292003011 putative homodimer interface [polypeptide binding]; other site 1193292003012 SAM binding site [chemical binding]; other site 1193292003013 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 1193292003014 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 1193292003015 S-adenosylmethionine binding site [chemical binding]; other site 1193292003016 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1193292003017 active site 1193292003018 SAM binding site [chemical binding]; other site 1193292003019 homodimer interface [polypeptide binding]; other site 1193292003020 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1193292003021 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1193292003022 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1193292003023 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1193292003024 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1193292003025 active site 1193292003026 SAM binding site [chemical binding]; other site 1193292003027 homodimer interface [polypeptide binding]; other site 1193292003028 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1193292003029 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1193292003030 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 1193292003031 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 1193292003032 active site 1193292003033 C-terminal domain interface [polypeptide binding]; other site 1193292003034 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 1193292003035 active site 1193292003036 N-terminal domain interface [polypeptide binding]; other site 1193292003037 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1193292003038 active site 1193292003039 SAM binding site [chemical binding]; other site 1193292003040 homodimer interface [polypeptide binding]; other site 1193292003041 cobalt transport protein CbiM; Validated; Region: PRK08319 1193292003042 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1193292003043 cobalt transport protein CbiN; Provisional; Region: PRK02898 1193292003044 cobalt transport protein CbiQ; Provisional; Region: PRK15485 1193292003045 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 1193292003046 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1193292003047 Walker A/P-loop; other site 1193292003048 ATP binding site [chemical binding]; other site 1193292003049 Q-loop/lid; other site 1193292003050 ABC transporter signature motif; other site 1193292003051 Walker B; other site 1193292003052 D-loop; other site 1193292003053 H-loop/switch region; other site 1193292003054 cobyric acid synthase; Provisional; Region: PRK00784 1193292003055 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 1193292003056 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 1193292003057 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1193292003058 catalytic triad [active] 1193292003059 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 1193292003060 homotrimer interface [polypeptide binding]; other site 1193292003061 Walker A motif; other site 1193292003062 GTP binding site [chemical binding]; other site 1193292003063 Walker B motif; other site 1193292003064 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1193292003065 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1193292003066 putative dimer interface [polypeptide binding]; other site 1193292003067 active site pocket [active] 1193292003068 putative cataytic base [active] 1193292003069 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1193292003070 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1193292003071 putative ATP binding site [chemical binding]; other site 1193292003072 putative substrate interface [chemical binding]; other site 1193292003073 Fe-S metabolism associated domain; Region: SufE; cl00951 1193292003074 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1193292003075 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 1193292003076 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292003077 catalytic residue [active] 1193292003078 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1193292003079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292003080 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1193292003081 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1193292003082 dimerization interface [polypeptide binding]; other site 1193292003083 substrate binding pocket [chemical binding]; other site 1193292003084 hypothetical protein; Provisional; Region: PRK10873 1193292003085 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1193292003086 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1193292003087 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 1193292003088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292003089 DNA-binding site [nucleotide binding]; DNA binding site 1193292003090 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292003091 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 1193292003092 L-fuculokinase; Provisional; Region: PRK10331 1193292003093 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1193292003094 nucleotide binding site [chemical binding]; other site 1193292003095 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1193292003096 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 1193292003097 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1193292003098 trimer interface [polypeptide binding]; other site 1193292003099 substrate binding site [chemical binding]; other site 1193292003100 Mn binding site [ion binding]; other site 1193292003101 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1193292003102 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 1193292003103 putative substrate translocation pore; other site 1193292003104 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1193292003105 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1193292003106 intersubunit interface [polypeptide binding]; other site 1193292003107 active site 1193292003108 Zn2+ binding site [ion binding]; other site 1193292003109 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1193292003110 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1193292003111 dimer interface [polypeptide binding]; other site 1193292003112 active site 1193292003113 metal binding site [ion binding]; metal-binding site 1193292003114 flap endonuclease-like protein; Provisional; Region: PRK09482 1193292003115 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1193292003116 active site 1193292003117 metal binding site 1 [ion binding]; metal-binding site 1193292003118 putative 5' ssDNA interaction site; other site 1193292003119 metal binding site 3; metal-binding site 1193292003120 metal binding site 2 [ion binding]; metal-binding site 1193292003121 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1193292003122 putative DNA binding site [nucleotide binding]; other site 1193292003123 putative metal binding site [ion binding]; other site 1193292003124 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1193292003125 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 1193292003126 Walker A motif; other site 1193292003127 ATP binding site [chemical binding]; other site 1193292003128 Walker B motif; other site 1193292003129 arginine finger; other site 1193292003130 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1193292003131 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1193292003132 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 1193292003133 substrate binding pocket [chemical binding]; other site 1193292003134 membrane-bound complex binding site; other site 1193292003135 hinge residues; other site 1193292003136 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1193292003137 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1193292003138 active site 1193292003139 dimer interface [polypeptide binding]; other site 1193292003140 non-prolyl cis peptide bond; other site 1193292003141 insertion regions; other site 1193292003142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1193292003143 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1193292003144 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1193292003145 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1193292003146 active site 1193292003147 non-prolyl cis peptide bond; other site 1193292003148 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1193292003149 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1193292003150 Walker A/P-loop; other site 1193292003151 ATP binding site [chemical binding]; other site 1193292003152 Q-loop/lid; other site 1193292003153 ABC transporter signature motif; other site 1193292003154 Walker B; other site 1193292003155 D-loop; other site 1193292003156 H-loop/switch region; other site 1193292003157 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 1193292003158 dimer interface [polypeptide binding]; other site 1193292003159 conserved gate region; other site 1193292003160 ABC-ATPase subunit interface; other site 1193292003161 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1193292003162 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 1193292003163 putative substrate translocation pore; other site 1193292003164 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1193292003165 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 1193292003166 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1193292003167 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1193292003168 Flavin binding site [chemical binding]; other site 1193292003169 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1193292003170 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 1193292003171 substrate binding pocket [chemical binding]; other site 1193292003172 membrane-bound complex binding site; other site 1193292003173 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1193292003174 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1193292003175 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1193292003176 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1193292003177 serine transporter; Region: stp; TIGR00814 1193292003178 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1193292003179 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1193292003180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1193292003181 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1193292003182 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1193292003183 SecY interacting protein Syd; Provisional; Region: PRK04968 1193292003184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 1193292003185 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1193292003186 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1193292003187 probable active site [active] 1193292003188 flavodoxin; Provisional; Region: PRK08105 1193292003189 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 1193292003190 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292003191 putative substrate translocation pore; other site 1193292003192 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1193292003193 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1193292003194 active site 1193292003195 tetramer interface [polypeptide binding]; other site 1193292003196 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1193292003197 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1193292003198 active site 1193292003199 tetramer interface [polypeptide binding]; other site 1193292003200 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1193292003201 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1193292003202 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 1193292003203 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 1193292003204 dimerization interface [polypeptide binding]; other site 1193292003205 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 1193292003206 dimer interface [polypeptide binding]; other site 1193292003207 phosphorylation site [posttranslational modification] 1193292003208 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 1193292003209 ATP binding site [chemical binding]; other site 1193292003210 Mg2+ binding site [ion binding]; other site 1193292003211 G-X-G motif; other site 1193292003212 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 1193292003213 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 1193292003214 active site 1193292003215 phosphorylation site [posttranslational modification] 1193292003216 intermolecular recognition site; other site 1193292003217 dimerization interface [polypeptide binding]; other site 1193292003218 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1193292003219 putative binding surface; other site 1193292003220 active site 1193292003221 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1193292003222 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 1193292003223 S-adenosylmethionine binding site [chemical binding]; other site 1193292003224 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1193292003225 HD domain; Region: HD_4; pfam13328 1193292003226 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1193292003227 synthetase active site [active] 1193292003228 NTP binding site [chemical binding]; other site 1193292003229 metal binding site [ion binding]; metal-binding site 1193292003230 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 1193292003231 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1193292003232 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1193292003233 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 1193292003234 homodimer interface [polypeptide binding]; other site 1193292003235 metal binding site [ion binding]; metal-binding site 1193292003236 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1193292003237 homodimer interface [polypeptide binding]; other site 1193292003238 active site 1193292003239 putative chemical substrate binding site [chemical binding]; other site 1193292003240 metal binding site [ion binding]; metal-binding site 1193292003241 CTP synthetase; Validated; Region: pyrG; PRK05380 1193292003242 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 1193292003243 Catalytic site [active] 1193292003244 active site 1193292003245 UTP binding site [chemical binding]; other site 1193292003246 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1193292003247 active site 1193292003248 putative oxyanion hole; other site 1193292003249 catalytic triad [active] 1193292003250 enolase; Provisional; Region: eno; PRK00077 1193292003251 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 1193292003252 dimer interface [polypeptide binding]; other site 1193292003253 metal binding site [ion binding]; metal-binding site 1193292003254 substrate binding pocket [chemical binding]; other site 1193292003255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292003256 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1193292003257 NAD(P) binding site [chemical binding]; other site 1193292003258 active site 1193292003259 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1193292003260 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1193292003261 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1193292003262 active site 1193292003263 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 1193292003264 Flavodoxin; Region: Flavodoxin_1; pfam00258 1193292003265 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 1193292003266 FAD binding pocket [chemical binding]; other site 1193292003267 FAD binding motif [chemical binding]; other site 1193292003268 catalytic residues [active] 1193292003269 NAD binding pocket [chemical binding]; other site 1193292003270 phosphate binding motif [ion binding]; other site 1193292003271 beta-alpha-beta structure motif; other site 1193292003272 sulfite reductase subunit beta; Provisional; Region: PRK13504 1193292003273 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1193292003274 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1193292003275 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1193292003276 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1193292003277 Active Sites [active] 1193292003278 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 1193292003279 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1193292003280 metal binding site [ion binding]; metal-binding site 1193292003281 siroheme synthase; Provisional; Region: cysG; PRK10637 1193292003282 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1193292003283 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1193292003284 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1193292003285 active site 1193292003286 SAM binding site [chemical binding]; other site 1193292003287 homodimer interface [polypeptide binding]; other site 1193292003288 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1193292003289 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1193292003290 Active Sites [active] 1193292003291 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1193292003292 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1193292003293 CysD dimerization site [polypeptide binding]; other site 1193292003294 G1 box; other site 1193292003295 putative GEF interaction site [polypeptide binding]; other site 1193292003296 GTP/Mg2+ binding site [chemical binding]; other site 1193292003297 Switch I region; other site 1193292003298 G2 box; other site 1193292003299 G3 box; other site 1193292003300 Switch II region; other site 1193292003301 G4 box; other site 1193292003302 G5 box; other site 1193292003303 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1193292003304 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1193292003305 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1193292003306 ligand-binding site [chemical binding]; other site 1193292003307 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 1193292003308 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1193292003309 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1193292003310 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1193292003311 substrate binding site; other site 1193292003312 dimer interface; other site 1193292003313 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 1193292003314 homotrimer interaction site [polypeptide binding]; other site 1193292003315 zinc binding site [ion binding]; other site 1193292003316 CDP-binding sites; other site 1193292003317 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1193292003318 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1193292003319 Permutation of conserved domain; other site 1193292003320 active site 1193292003321 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1193292003322 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1193292003323 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1193292003324 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 1193292003325 S-adenosylmethionine binding site [chemical binding]; other site 1193292003326 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1193292003327 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292003328 Peptidase family M23; Region: Peptidase_M23; pfam01551 1193292003329 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1193292003330 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1193292003331 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1193292003332 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1193292003333 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 1193292003334 DNA binding residues [nucleotide binding] 1193292003335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1193292003336 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292003337 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 1193292003338 putative substrate translocation pore; other site 1193292003339 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292003340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292003341 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292003342 putative effector binding pocket; other site 1193292003343 dimerization interface [polypeptide binding]; other site 1193292003344 MarR family; Region: MarR_2; cl17246 1193292003345 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1193292003346 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1193292003347 Flavoprotein; Region: Flavoprotein; pfam02441 1193292003348 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1193292003349 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 1193292003350 Hok/gef family; Region: HOK_GEF; pfam01848 1193292003351 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1193292003352 MutS domain I; Region: MutS_I; pfam01624 1193292003353 MutS domain II; Region: MutS_II; pfam05188 1193292003354 MutS domain III; Region: MutS_III; pfam05192 1193292003355 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1193292003356 Walker A/P-loop; other site 1193292003357 ATP binding site [chemical binding]; other site 1193292003358 Q-loop/lid; other site 1193292003359 ABC transporter signature motif; other site 1193292003360 Walker B; other site 1193292003361 D-loop; other site 1193292003362 H-loop/switch region; other site 1193292003363 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1193292003364 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1193292003365 Walker A/P-loop; other site 1193292003366 ATP binding site [chemical binding]; other site 1193292003367 Q-loop/lid; other site 1193292003368 ABC transporter signature motif; other site 1193292003369 Walker B; other site 1193292003370 D-loop; other site 1193292003371 H-loop/switch region; other site 1193292003372 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292003373 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 1193292003374 ABC-ATPase subunit interface; other site 1193292003375 dimer interface [polypeptide binding]; other site 1193292003376 putative PBP binding regions; other site 1193292003377 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1193292003378 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1193292003379 putative hemin binding site; other site 1193292003380 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1193292003381 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1193292003382 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1193292003383 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1193292003384 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292003385 N-terminal plug; other site 1193292003386 ligand-binding site [chemical binding]; other site 1193292003387 Rdx family; Region: Rdx; cl01407 1193292003388 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 1193292003389 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1193292003390 PYR/PP interface [polypeptide binding]; other site 1193292003391 dimer interface [polypeptide binding]; other site 1193292003392 TPP binding site [chemical binding]; other site 1193292003393 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1193292003394 TPP-binding site [chemical binding]; other site 1193292003395 Membrane transport protein; Region: Mem_trans; cl09117 1193292003396 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292003397 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292003398 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 1193292003399 dimerization interface [polypeptide binding]; other site 1193292003400 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 1193292003401 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1193292003402 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 1193292003403 ABC-ATPase subunit interface; other site 1193292003404 dimer interface [polypeptide binding]; other site 1193292003405 putative PBP binding regions; other site 1193292003406 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1193292003407 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 1193292003408 ABC-ATPase subunit interface; other site 1193292003409 dimer interface [polypeptide binding]; other site 1193292003410 putative PBP binding regions; other site 1193292003411 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 1193292003412 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1193292003413 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1193292003414 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1193292003415 metal binding site [ion binding]; metal-binding site 1193292003416 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292003417 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292003418 DNA binding site [nucleotide binding] 1193292003419 domain linker motif; other site 1193292003420 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1193292003421 ligand binding site [chemical binding]; other site 1193292003422 dimerization interface [polypeptide binding]; other site 1193292003423 fructokinase; Reviewed; Region: PRK09557 1193292003424 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1193292003425 nucleotide binding site [chemical binding]; other site 1193292003426 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cl00166 1193292003427 methionine cluster; other site 1193292003428 active site 1193292003429 phosphorylation site [posttranslational modification] 1193292003430 metal binding site [ion binding]; metal-binding site 1193292003431 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1193292003432 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1193292003433 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1193292003434 active site 1193292003435 P-loop; other site 1193292003436 phosphorylation site [posttranslational modification] 1193292003437 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1193292003438 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1193292003439 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1193292003440 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1193292003441 Interdomain contacts; other site 1193292003442 Cytokine receptor motif; other site 1193292003443 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 1193292003444 putative metal binding site [ion binding]; other site 1193292003445 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1193292003446 beta-galactosidase; Region: BGL; TIGR03356 1193292003447 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 1193292003448 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1193292003449 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1193292003450 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 1193292003451 Walker A motif; other site 1193292003452 ATP binding site [chemical binding]; other site 1193292003453 Walker B motif; other site 1193292003454 arginine finger; other site 1193292003455 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1193292003456 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1193292003457 dimerization interface [polypeptide binding]; other site 1193292003458 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1193292003459 ATP binding site [chemical binding]; other site 1193292003460 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1193292003461 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1193292003462 hydrogenase assembly chaperone; Provisional; Region: PRK10409 1193292003463 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 1193292003464 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 1193292003465 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 1193292003466 Transcriptional repressor of hyc and hyp operons; Region: HycA_repressor; pfam11046 1193292003467 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1193292003468 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 1193292003469 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1193292003470 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1193292003471 NADH dehydrogenase; Region: NADHdh; cl00469 1193292003472 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 1193292003473 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1193292003474 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1193292003475 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 1193292003476 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1193292003477 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1193292003478 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 1193292003479 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 1193292003480 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 1193292003481 nickel binding site [ion binding]; other site 1193292003482 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 1193292003483 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 1193292003484 beta-galactosidase; Region: BGL; TIGR03356 1193292003485 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 1193292003486 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 1193292003487 active site turn [active] 1193292003488 phosphorylation site [posttranslational modification] 1193292003489 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1193292003490 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292003491 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292003492 DNA binding site [nucleotide binding] 1193292003493 domain linker motif; other site 1193292003494 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1193292003495 dimerization interface (closed form) [polypeptide binding]; other site 1193292003496 ligand binding site [chemical binding]; other site 1193292003497 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 1193292003498 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1193292003499 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1193292003500 Acylphosphatase; Region: Acylphosphatase; pfam00708 1193292003501 HypF finger; Region: zf-HYPF; pfam07503 1193292003502 HypF finger; Region: zf-HYPF; pfam07503 1193292003503 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1193292003504 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1193292003505 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1193292003506 UAF complex subunit Rrn10; Region: UAF_Rrn10; pfam05234 1193292003507 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292003508 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292003509 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 1193292003510 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1193292003511 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1193292003512 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1193292003513 iron binding site [ion binding]; other site 1193292003514 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1193292003515 GAF domain; Region: GAF; pfam01590 1193292003516 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 1193292003517 Walker A motif; other site 1193292003518 ATP binding site [chemical binding]; other site 1193292003519 Walker B motif; other site 1193292003520 arginine finger; other site 1193292003521 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 1193292003522 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1193292003523 putative active site [active] 1193292003524 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1193292003525 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1193292003526 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1193292003527 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292003528 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1193292003529 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1193292003530 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 1193292003531 putative NAD(P) binding site [chemical binding]; other site 1193292003532 active site 1193292003533 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 1193292003534 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 1193292003535 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1193292003536 Nucleoside recognition; Region: Gate; pfam07670 1193292003537 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1193292003538 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1193292003539 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1193292003540 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 1193292003541 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1193292003542 catalytic residue [active] 1193292003543 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1193292003544 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1193292003545 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1193292003546 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 1193292003547 ABC-ATPase subunit interface; other site 1193292003548 dimer interface [polypeptide binding]; other site 1193292003549 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1193292003550 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1193292003551 metal binding site [ion binding]; metal-binding site 1193292003552 hypothetical protein; Validated; Region: PRK03661 1193292003553 recombinase A; Provisional; Region: recA; PRK09354 1193292003554 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 1193292003555 hexamer interface [polypeptide binding]; other site 1193292003556 Walker A motif; other site 1193292003557 ATP binding site [chemical binding]; other site 1193292003558 Walker B motif; other site 1193292003559 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1193292003560 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1193292003561 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 1193292003562 motif 1; other site 1193292003563 active site 1193292003564 motif 2; other site 1193292003565 motif 3; other site 1193292003566 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1193292003567 DHHA1 domain; Region: DHHA1; pfam02272 1193292003568 carbon storage regulator; Provisional; Region: PRK01712 1193292003569 BON domain; Region: BON; pfam04972 1193292003570 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1193292003571 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 1193292003572 motif II; other site 1193292003573 Predicted membrane protein [Function unknown]; Region: COG1238 1193292003574 glutamate--cysteine ligase; Provisional; Region: PRK02107 1193292003575 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1193292003576 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1193292003577 Helix-turn-helix domain; Region: HTH_18; pfam12833 1193292003578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292003579 2-isopropylmalate synthase; Validated; Region: PRK03739 1193292003580 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1193292003581 active site 1193292003582 catalytic residues [active] 1193292003583 metal binding site [ion binding]; metal-binding site 1193292003584 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1193292003585 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1193292003586 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 1193292003587 putative substrate translocation pore; other site 1193292003588 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 1193292003589 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1193292003590 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292003591 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292003592 transcriptional repressor MprA; Provisional; Region: PRK10870 1193292003593 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1193292003594 putative L-valine exporter; Provisional; Region: PRK10408 1193292003595 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1193292003596 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 1193292003597 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1193292003598 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1193292003599 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 1193292003600 dimer interface [polypeptide binding]; other site 1193292003601 conserved gate region; other site 1193292003602 putative PBP binding loops; other site 1193292003603 ABC-ATPase subunit interface; other site 1193292003604 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 1193292003605 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1193292003606 Walker A/P-loop; other site 1193292003607 ATP binding site [chemical binding]; other site 1193292003608 Q-loop/lid; other site 1193292003609 ABC transporter signature motif; other site 1193292003610 Walker B; other site 1193292003611 D-loop; other site 1193292003612 H-loop/switch region; other site 1193292003613 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1193292003614 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1193292003615 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1193292003616 dimer interface [polypeptide binding]; other site 1193292003617 putative radical transfer pathway; other site 1193292003618 diiron center [ion binding]; other site 1193292003619 tyrosyl radical; other site 1193292003620 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1193292003621 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1193292003622 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1193292003623 active site 1193292003624 dimer interface [polypeptide binding]; other site 1193292003625 catalytic residues [active] 1193292003626 effector binding site; other site 1193292003627 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1193292003628 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1193292003629 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 1193292003630 catalytic residues [active] 1193292003631 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1193292003632 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1193292003633 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 1193292003634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292003635 DNA-binding site [nucleotide binding]; DNA binding site 1193292003636 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 1193292003637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292003638 homodimer interface [polypeptide binding]; other site 1193292003639 catalytic residue [active] 1193292003640 hypothetical protein; Provisional; Region: PRK10132 1193292003641 hypothetical protein; Provisional; Region: PRK10556 1193292003642 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 1193292003643 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1193292003644 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1193292003645 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1193292003646 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1193292003647 active site residue [active] 1193292003648 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1193292003649 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 1193292003650 dimerization interface [polypeptide binding]; other site 1193292003651 putative DNA binding site [nucleotide binding]; other site 1193292003652 putative Zn2+ binding site [ion binding]; other site 1193292003653 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1193292003654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292003655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292003656 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1193292003657 putative effector binding pocket; other site 1193292003658 putative dimerization interface [polypeptide binding]; other site 1193292003659 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1193292003660 GAF domain; Region: GAF; pfam01590 1193292003661 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 1193292003662 Walker A motif; other site 1193292003663 ATP binding site [chemical binding]; other site 1193292003664 Walker B motif; other site 1193292003665 arginine finger; other site 1193292003666 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1193292003667 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1193292003668 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1193292003669 NAD(P) binding site [chemical binding]; other site 1193292003670 catalytic residues [active] 1193292003671 Fimbrial protein; Region: Fimbrial; cl01416 1193292003672 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1193292003673 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292003674 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292003675 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1193292003676 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292003677 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292003678 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292003679 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292003680 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1193292003681 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292003682 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292003683 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292003684 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1193292003685 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292003686 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292003687 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292003688 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1193292003689 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 1193292003690 DNA binding residues [nucleotide binding] 1193292003691 dimerization interface [polypeptide binding]; other site 1193292003692 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 1193292003693 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292003694 substrate binding pocket [chemical binding]; other site 1193292003695 membrane-bound complex binding site; other site 1193292003696 hinge residues; other site 1193292003697 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1193292003698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292003699 NAD(P) binding site [chemical binding]; other site 1193292003700 active site 1193292003701 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1193292003702 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1193292003703 putative ligand binding site [chemical binding]; other site 1193292003704 NAD binding site [chemical binding]; other site 1193292003705 dimerization interface [polypeptide binding]; other site 1193292003706 catalytic site [active] 1193292003707 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1193292003708 intersubunit interface [polypeptide binding]; other site 1193292003709 active site 1193292003710 Zn2+ binding site [ion binding]; other site 1193292003711 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 1193292003712 dimer interface [polypeptide binding]; other site 1193292003713 conserved gate region; other site 1193292003714 ABC-ATPase subunit interface; other site 1193292003715 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292003716 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292003717 Walker A/P-loop; other site 1193292003718 ATP binding site [chemical binding]; other site 1193292003719 Q-loop/lid; other site 1193292003720 ABC transporter signature motif; other site 1193292003721 Walker B; other site 1193292003722 D-loop; other site 1193292003723 H-loop/switch region; other site 1193292003724 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 1193292003725 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292003726 substrate binding pocket [chemical binding]; other site 1193292003727 membrane-bound complex binding site; other site 1193292003728 hinge residues; other site 1193292003729 oxidase reductase; Provisional; Region: PTZ00273 1193292003730 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1193292003731 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1193292003732 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1193292003733 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1193292003734 agmatinase; Region: agmatinase; TIGR01230 1193292003735 oligomer interface [polypeptide binding]; other site 1193292003736 putative active site [active] 1193292003737 Mn binding site [ion binding]; other site 1193292003738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292003739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292003740 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 1193292003741 dimerization interface [polypeptide binding]; other site 1193292003742 hypothetical protein; Provisional; Region: PRK06847 1193292003743 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1193292003744 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292003745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292003746 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 1193292003747 putative substrate binding pocket [chemical binding]; other site 1193292003748 putative dimerization interface [polypeptide binding]; other site 1193292003749 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1193292003750 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1193292003751 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 1193292003752 putative active site [active] 1193292003753 putative metal binding site [ion binding]; other site 1193292003754 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1193292003755 iron-sulfur cluster [ion binding]; other site 1193292003756 [2Fe-2S] cluster binding site [ion binding]; other site 1193292003757 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1193292003758 Putative cyclase; Region: Cyclase; pfam04199 1193292003759 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 1193292003760 putative substrate translocation pore; other site 1193292003761 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292003762 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1193292003763 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1193292003764 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1193292003765 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1193292003766 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1193292003767 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1193292003768 Predicted flavoprotein [General function prediction only]; Region: COG0431 1193292003769 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1193292003770 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1193292003771 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1193292003772 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292003773 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292003774 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 1193292003775 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292003776 putative substrate translocation pore; other site 1193292003777 pyranose oxidase; Region: pyranose_ox; TIGR02462 1193292003778 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1193292003779 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1193292003780 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1193292003781 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1193292003782 Predicted transcriptional regulator [Transcription]; Region: COG1959 1193292003783 Transcriptional regulator; Region: Rrf2; pfam02082 1193292003784 Transcriptional regulator; Region: Rrf2; cl17282 1193292003785 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1193292003786 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1193292003787 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292003788 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292003789 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1193292003790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292003791 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1193292003792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292003793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292003794 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1193292003795 putative effector binding pocket; other site 1193292003796 putative dimerization interface [polypeptide binding]; other site 1193292003797 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 1193292003798 SmpB-tmRNA interface; other site 1193292003799 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1193292003800 putative coenzyme Q binding site [chemical binding]; other site 1193292003801 hypothetical protein; Validated; Region: PRK01777 1193292003802 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 1193292003803 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1193292003804 recombination and repair protein; Provisional; Region: PRK10869 1193292003805 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1193292003806 Walker A/P-loop; other site 1193292003807 ATP binding site [chemical binding]; other site 1193292003808 Q-loop/lid; other site 1193292003809 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1193292003810 ABC transporter signature motif; other site 1193292003811 Walker B; other site 1193292003812 D-loop; other site 1193292003813 H-loop/switch region; other site 1193292003814 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 1193292003815 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1193292003816 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1193292003817 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 1193292003818 dimer interface [polypeptide binding]; other site 1193292003819 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1193292003820 hypothetical protein; Provisional; Region: PRK11573 1193292003821 Domain of unknown function DUF21; Region: DUF21; pfam01595 1193292003822 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 1193292003823 Transporter associated domain; Region: CorC_HlyC; smart01091 1193292003824 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1193292003825 signal recognition particle protein; Provisional; Region: PRK10867 1193292003826 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1193292003827 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 1193292003828 P loop; other site 1193292003829 GTP binding site [chemical binding]; other site 1193292003830 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1193292003831 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1193292003832 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1193292003833 RimM N-terminal domain; Region: RimM; pfam01782 1193292003834 PRC-barrel domain; Region: PRC; pfam05239 1193292003835 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1193292003836 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1193292003837 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1193292003838 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1193292003839 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1193292003840 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1193292003841 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1193292003842 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1193292003843 ligand binding site [chemical binding]; other site 1193292003844 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1193292003845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292003846 metal binding site [ion binding]; metal-binding site 1193292003847 active site 1193292003848 I-site; other site 1193292003849 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1193292003850 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1193292003851 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1193292003852 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1193292003853 Chorismate mutase type II; Region: CM_2; cl00693 1193292003854 prephenate dehydrogenase; Validated; Region: PRK08507 1193292003855 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1193292003856 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1193292003857 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1193292003858 Prephenate dehydratase; Region: PDT; pfam00800 1193292003859 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 1193292003860 putative L-Phe binding site [chemical binding]; other site 1193292003861 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 1193292003862 30S subunit binding site; other site 1193292003863 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 1193292003864 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1193292003865 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 1193292003866 RNA binding surface [nucleotide binding]; other site 1193292003867 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1193292003868 active site 1193292003869 hypothetical protein; Provisional; Region: PRK10723 1193292003870 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1193292003871 protein disaggregation chaperone; Provisional; Region: PRK10865 1193292003872 Clp amino terminal domain; Region: Clp_N; pfam02861 1193292003873 Clp amino terminal domain; Region: Clp_N; pfam02861 1193292003874 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 1193292003875 Walker A motif; other site 1193292003876 ATP binding site [chemical binding]; other site 1193292003877 Walker B motif; other site 1193292003878 arginine finger; other site 1193292003879 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 1193292003880 Walker A motif; other site 1193292003881 ATP binding site [chemical binding]; other site 1193292003882 Walker B motif; other site 1193292003883 arginine finger; other site 1193292003884 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1193292003885 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1193292003886 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 1193292003887 putative substrate translocation pore; other site 1193292003888 lipoprotein; Provisional; Region: PRK10759 1193292003889 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1193292003890 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1193292003891 domain interface [polypeptide binding]; other site 1193292003892 putative active site [active] 1193292003893 catalytic site [active] 1193292003894 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1193292003895 domain interface [polypeptide binding]; other site 1193292003896 putative active site [active] 1193292003897 catalytic site [active] 1193292003898 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1193292003899 CoA binding domain; Region: CoA_binding_2; pfam13380 1193292003900 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1193292003901 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1193292003902 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1193292003903 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1193292003904 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1193292003905 thioredoxin 2; Provisional; Region: PRK10996 1193292003906 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 1193292003907 catalytic residues [active] 1193292003908 putative methyltransferase; Provisional; Region: PRK10864 1193292003909 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1193292003910 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1193292003911 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1193292003912 ligand binding site [chemical binding]; other site 1193292003913 active site 1193292003914 UGI interface [polypeptide binding]; other site 1193292003915 catalytic site [active] 1193292003916 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1193292003917 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1193292003918 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 1193292003919 ATP binding site [chemical binding]; other site 1193292003920 Mg++ binding site [ion binding]; other site 1193292003921 motif III; other site 1193292003922 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 1193292003923 nucleotide binding region [chemical binding]; other site 1193292003924 ATP-binding site [chemical binding]; other site 1193292003925 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1193292003926 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 1193292003927 L-aspartate oxidase; Provisional; Region: PRK09077 1193292003928 L-aspartate oxidase; Provisional; Region: PRK06175 1193292003929 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1193292003930 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1193292003931 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1193292003932 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 1193292003933 DNA binding residues [nucleotide binding] 1193292003934 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1193292003935 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1193292003936 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1193292003937 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1193292003938 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1193292003939 SoxR reducing system protein RseC; Provisional; Region: PRK10862 1193292003940 GTP-binding protein LepA; Provisional; Region: PRK05433 1193292003941 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1193292003942 G1 box; other site 1193292003943 putative GEF interaction site [polypeptide binding]; other site 1193292003944 GTP/Mg2+ binding site [chemical binding]; other site 1193292003945 Switch I region; other site 1193292003946 G2 box; other site 1193292003947 G3 box; other site 1193292003948 Switch II region; other site 1193292003949 G4 box; other site 1193292003950 G5 box; other site 1193292003951 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 1193292003952 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 1193292003953 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1193292003954 signal peptidase I; Provisional; Region: PRK10861 1193292003955 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 1193292003956 Catalytic site [active] 1193292003957 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 1193292003958 ribonuclease III; Reviewed; Region: rnc; PRK00102 1193292003959 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 1193292003960 dimerization interface [polypeptide binding]; other site 1193292003961 active site 1193292003962 metal binding site [ion binding]; metal-binding site 1193292003963 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 1193292003964 dsRNA binding site [nucleotide binding]; other site 1193292003965 GTPase Era; Reviewed; Region: era; PRK00089 1193292003966 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1193292003967 G1 box; other site 1193292003968 GTP/Mg2+ binding site [chemical binding]; other site 1193292003969 Switch I region; other site 1193292003970 G2 box; other site 1193292003971 Switch II region; other site 1193292003972 G3 box; other site 1193292003973 G4 box; other site 1193292003974 G5 box; other site 1193292003975 KH domain; Region: KH_2; pfam07650 1193292003976 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1193292003977 Recombination protein O N terminal; Region: RecO_N; pfam11967 1193292003978 Recombination protein O C terminal; Region: RecO_C; pfam02565 1193292003979 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1193292003980 active site 1193292003981 hydrophilic channel; other site 1193292003982 dimerization interface [polypeptide binding]; other site 1193292003983 catalytic residues [active] 1193292003984 active site lid [active] 1193292003985 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1193292003986 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1193292003987 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292003988 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 1193292003989 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1193292003990 putative active site [active] 1193292003991 hypothetical protein; Provisional; Region: PRK11590 1193292003992 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1193292003993 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 1193292003994 nucleoside/Zn binding site; other site 1193292003995 dimer interface [polypeptide binding]; other site 1193292003996 catalytic motif [active] 1193292003997 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1193292003998 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 1193292003999 substrate binding pocket [chemical binding]; other site 1193292004000 membrane-bound complex binding site; other site 1193292004001 hinge residues; other site 1193292004002 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 1193292004003 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1193292004004 catalytic residue [active] 1193292004005 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1193292004006 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 1193292004007 dimerization interface [polypeptide binding]; other site 1193292004008 ATP binding site [chemical binding]; other site 1193292004009 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1193292004010 dimerization interface [polypeptide binding]; other site 1193292004011 ATP binding site [chemical binding]; other site 1193292004012 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1193292004013 putative active site [active] 1193292004014 catalytic triad [active] 1193292004015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1193292004016 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 1193292004017 dimer interface [polypeptide binding]; other site 1193292004018 phosphorylation site [posttranslational modification] 1193292004019 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 1193292004020 ATP binding site [chemical binding]; other site 1193292004021 Mg2+ binding site [ion binding]; other site 1193292004022 G-X-G motif; other site 1193292004023 hypothetical protein; Provisional; Region: PRK10722 1193292004024 response regulator GlrR; Provisional; Region: PRK15115 1193292004025 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 1193292004026 active site 1193292004027 phosphorylation site [posttranslational modification] 1193292004028 intermolecular recognition site; other site 1193292004029 dimerization interface [polypeptide binding]; other site 1193292004030 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 1193292004031 Walker A motif; other site 1193292004032 ATP binding site [chemical binding]; other site 1193292004033 Walker B motif; other site 1193292004034 arginine finger; other site 1193292004035 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1193292004036 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1193292004037 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1193292004038 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1193292004039 heme-binding site [chemical binding]; other site 1193292004040 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1193292004041 FAD binding pocket [chemical binding]; other site 1193292004042 FAD binding motif [chemical binding]; other site 1193292004043 phosphate binding motif [ion binding]; other site 1193292004044 beta-alpha-beta structure motif; other site 1193292004045 NAD binding pocket [chemical binding]; other site 1193292004046 Heme binding pocket [chemical binding]; other site 1193292004047 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1193292004048 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 1193292004049 dimer interface [polypeptide binding]; other site 1193292004050 active site 1193292004051 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1193292004052 folate binding site [chemical binding]; other site 1193292004053 Predicted membrane protein [Function unknown]; Region: COG2259 1193292004054 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1193292004055 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1193292004056 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 1193292004057 binding surface 1193292004058 TPR motif; other site 1193292004059 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 1193292004060 binding surface 1193292004061 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1193292004062 TPR motif; other site 1193292004063 TPR repeat; Region: TPR_11; pfam13414 1193292004064 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 1193292004065 binding surface 1193292004066 TPR motif; other site 1193292004067 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1193292004068 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 1193292004069 putative substrate translocation pore; other site 1193292004070 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 1193292004071 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1193292004072 active site 1193292004073 catalytic residues [active] 1193292004074 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1193292004075 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 1193292004076 putative substrate translocation pore; other site 1193292004077 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 1193292004078 PRD domain; Region: PRD; pfam00874 1193292004079 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1193292004080 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1193292004081 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1193292004082 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1193292004083 active site 1193292004084 dimerization interface [polypeptide binding]; other site 1193292004085 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1193292004086 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1193292004087 Transcriptional regulator; Region: Rrf2; cl17282 1193292004088 Rrf2 family protein; Region: rrf2_super; TIGR00738 1193292004089 cysteine desulfurase; Provisional; Region: PRK14012 1193292004090 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1193292004091 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292004092 catalytic residue [active] 1193292004093 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1193292004094 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1193292004095 trimerization site [polypeptide binding]; other site 1193292004096 active site 1193292004097 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1193292004098 co-chaperone HscB; Provisional; Region: hscB; PRK05014 1193292004099 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 1193292004100 HSP70 interaction site [polypeptide binding]; other site 1193292004101 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1193292004102 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1193292004103 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1193292004104 nucleotide binding site [chemical binding]; other site 1193292004105 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1193292004106 SBD interface [polypeptide binding]; other site 1193292004107 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292004108 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1193292004109 catalytic loop [active] 1193292004110 iron binding site [ion binding]; other site 1193292004111 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1193292004112 aminopeptidase B; Provisional; Region: PRK05015 1193292004113 Peptidase; Region: DUF3663; pfam12404 1193292004114 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 1193292004115 interface (dimer of trimers) [polypeptide binding]; other site 1193292004116 Substrate-binding/catalytic site; other site 1193292004117 Zn-binding sites [ion binding]; other site 1193292004118 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 1193292004119 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1193292004120 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 1193292004121 active site residue [active] 1193292004122 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 1193292004123 active site residue [active] 1193292004124 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1193292004125 MG2 domain; Region: A2M_N; pfam01835 1193292004126 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1193292004127 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1193292004128 surface patch; other site 1193292004129 thioester region; other site 1193292004130 specificity defining residues; other site 1193292004131 penicillin-binding protein 1C; Provisional; Region: PRK11240 1193292004132 Transglycosylase; Region: Transgly; pfam00912 1193292004133 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1193292004134 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1193292004135 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 1193292004136 active site 1193292004137 multimer interface [polypeptide binding]; other site 1193292004138 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1193292004139 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 1193292004140 FeS/SAM binding site; other site 1193292004141 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1193292004142 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 1193292004143 non-specific DNA binding site [nucleotide binding]; other site 1193292004144 salt bridge; other site 1193292004145 sequence-specific DNA binding site [nucleotide binding]; other site 1193292004146 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1193292004147 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1193292004148 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1193292004149 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1193292004150 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1193292004151 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 1193292004152 dimer interface [polypeptide binding]; other site 1193292004153 motif 1; other site 1193292004154 active site 1193292004155 motif 2; other site 1193292004156 motif 3; other site 1193292004157 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 1193292004158 anticodon binding site; other site 1193292004159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1193292004160 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1193292004161 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1193292004162 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1193292004163 Trp docking motif [polypeptide binding]; other site 1193292004164 GTP-binding protein Der; Reviewed; Region: PRK00093 1193292004165 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1193292004166 G1 box; other site 1193292004167 GTP/Mg2+ binding site [chemical binding]; other site 1193292004168 Switch I region; other site 1193292004169 G2 box; other site 1193292004170 Switch II region; other site 1193292004171 G3 box; other site 1193292004172 G4 box; other site 1193292004173 G5 box; other site 1193292004174 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1193292004175 G1 box; other site 1193292004176 GTP/Mg2+ binding site [chemical binding]; other site 1193292004177 Switch I region; other site 1193292004178 G2 box; other site 1193292004179 G3 box; other site 1193292004180 Switch II region; other site 1193292004181 G4 box; other site 1193292004182 G5 box; other site 1193292004183 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292004184 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292004185 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 1193292004186 Nucleolar RNA-binding protein, Nop10p family; Region: Nop10p; cl00977 1193292004187 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1193292004188 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 1193292004189 generic binding surface II; other site 1193292004190 generic binding surface I; other site 1193292004191 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1193292004192 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 1193292004193 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 1193292004194 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 1193292004195 active site 1193292004196 GMP synthase; Reviewed; Region: guaA; PRK00074 1193292004197 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1193292004198 AMP/PPi binding site [chemical binding]; other site 1193292004199 candidate oxyanion hole; other site 1193292004200 catalytic triad [active] 1193292004201 potential glutamine specificity residues [chemical binding]; other site 1193292004202 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 1193292004203 ATP Binding subdomain [chemical binding]; other site 1193292004204 Ligand Binding sites [chemical binding]; other site 1193292004205 Dimerization subdomain; other site 1193292004206 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1193292004207 Sulfatase; Region: Sulfatase; cl17466 1193292004208 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1193292004209 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 1193292004210 FeS/SAM binding site; other site 1193292004211 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1193292004212 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292004213 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 1193292004214 putative substrate translocation pore; other site 1193292004215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292004216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292004217 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 1193292004218 dimerization interface [polypeptide binding]; other site 1193292004219 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 1193292004220 MASE1; Region: MASE1; pfam05231 1193292004221 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292004222 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1193292004223 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292004224 exopolyphosphatase; Provisional; Region: PRK10854 1193292004225 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1193292004226 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 1193292004227 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1193292004228 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1193292004229 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 1193292004230 domain interface [polypeptide binding]; other site 1193292004231 active site 1193292004232 catalytic site [active] 1193292004233 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 1193292004234 domain interface [polypeptide binding]; other site 1193292004235 active site 1193292004236 catalytic site [active] 1193292004237 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1193292004238 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1193292004239 active site 1193292004240 substrate binding site [chemical binding]; other site 1193292004241 cosubstrate binding site; other site 1193292004242 catalytic site [active] 1193292004243 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1193292004244 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 1193292004245 dimerization interface [polypeptide binding]; other site 1193292004246 putative ATP binding site [chemical binding]; other site 1193292004247 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1193292004248 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1193292004249 nucleotide binding site [chemical binding]; other site 1193292004250 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 1193292004251 beta-galactosidase; Region: BGL; TIGR03356 1193292004252 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1193292004253 active site 1193292004254 uracil transporter; Provisional; Region: PRK10720 1193292004255 DNA replication initiation factor; Provisional; Region: PRK08084 1193292004256 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1193292004257 hypothetical protein; Provisional; Region: PRK09956 1193292004258 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1193292004259 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 1193292004260 ArsC family; Region: ArsC; pfam03960 1193292004261 catalytic residues [active] 1193292004262 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1193292004263 Peptidase family M48; Region: Peptidase_M48; cl12018 1193292004264 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1193292004265 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1193292004266 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1193292004267 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 1193292004268 catalytic triad [active] 1193292004269 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 1193292004270 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1193292004271 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1193292004272 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1193292004273 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1193292004274 dimer interface [polypeptide binding]; other site 1193292004275 active site 1193292004276 catalytic residue [active] 1193292004277 lipoprotein; Provisional; Region: PRK11679 1193292004278 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1193292004279 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1193292004280 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1193292004281 ATP binding site [chemical binding]; other site 1193292004282 active site 1193292004283 substrate binding site [chemical binding]; other site 1193292004284 Predicted metalloprotease [General function prediction only]; Region: COG2321 1193292004285 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1193292004286 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1193292004287 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1193292004288 Helicase; Region: Helicase_RecD; pfam05127 1193292004289 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1193292004290 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 1193292004291 putative hydrolase; Provisional; Region: PRK11460 1193292004292 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1193292004293 hypothetical protein; Provisional; Region: PRK13664 1193292004294 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1193292004295 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1193292004296 metal binding site [ion binding]; metal-binding site 1193292004297 dimer interface [polypeptide binding]; other site 1193292004298 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1193292004299 ArsC family; Region: ArsC; pfam03960 1193292004300 putative catalytic residues [active] 1193292004301 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 1193292004302 Protein export membrane protein; Region: SecD_SecF; cl14618 1193292004303 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 1193292004304 4Fe-4S binding domain; Region: Fer4; pfam00037 1193292004305 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292004306 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292004307 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1193292004308 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 1193292004309 dimer interface [polypeptide binding]; other site 1193292004310 ADP-ribose binding site [chemical binding]; other site 1193292004311 active site 1193292004312 nudix motif; other site 1193292004313 metal binding site [ion binding]; metal-binding site 1193292004314 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1193292004315 transketolase; Reviewed; Region: PRK12753 1193292004316 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 1193292004317 TPP-binding site [chemical binding]; other site 1193292004318 dimer interface [polypeptide binding]; other site 1193292004319 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 1193292004320 PYR/PP interface [polypeptide binding]; other site 1193292004321 dimer interface [polypeptide binding]; other site 1193292004322 TPP binding site [chemical binding]; other site 1193292004323 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1193292004324 transaldolase-like protein; Provisional; Region: PTZ00411 1193292004325 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1193292004326 active site 1193292004327 dimer interface [polypeptide binding]; other site 1193292004328 catalytic residue [active] 1193292004329 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1193292004330 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1193292004331 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1193292004332 putative NAD(P) binding site [chemical binding]; other site 1193292004333 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1193292004334 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 1193292004335 putative hexamer interface [polypeptide binding]; other site 1193292004336 putative hexagonal pore; other site 1193292004337 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1193292004338 G1 box; other site 1193292004339 GTP/Mg2+ binding site [chemical binding]; other site 1193292004340 G2 box; other site 1193292004341 Switch I region; other site 1193292004342 G3 box; other site 1193292004343 Switch II region; other site 1193292004344 G4 box; other site 1193292004345 G5 box; other site 1193292004346 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 1193292004347 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 1193292004348 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 1193292004349 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1193292004350 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1193292004351 Hexamer/Pentamer interface [polypeptide binding]; other site 1193292004352 central pore; other site 1193292004353 aldehyde dehydrogenase EutE; Provisional; Region: PRK15398 1193292004354 NAD(P) binding site [chemical binding]; other site 1193292004355 catalytic residues [active] 1193292004356 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 1193292004357 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1193292004358 nucleotide binding site [chemical binding]; other site 1193292004359 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 1193292004360 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1193292004361 active site 1193292004362 metal binding site [ion binding]; metal-binding site 1193292004363 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 1193292004364 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 1193292004365 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 1193292004366 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1193292004367 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 1193292004368 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 1193292004369 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 1193292004370 putative hexamer interface [polypeptide binding]; other site 1193292004371 putative hexagonal pore; other site 1193292004372 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 1193292004373 putative hexamer interface [polypeptide binding]; other site 1193292004374 putative hexagonal pore; other site 1193292004375 carboxysome structural protein EutK; Provisional; Region: PRK15466 1193292004376 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1193292004377 Hexamer interface [polypeptide binding]; other site 1193292004378 Hexagonal pore residue; other site 1193292004379 transcriptional regulator EutR; Provisional; Region: PRK10130 1193292004380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292004381 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292004382 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1193292004383 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1193292004384 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 1193292004385 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 1193292004386 active site 1193292004387 metal binding site [ion binding]; metal-binding site 1193292004388 putative acetyltransferase; Provisional; Region: PRK03624 1193292004389 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292004390 Coenzyme A binding pocket [chemical binding]; other site 1193292004391 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 1193292004392 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 1193292004393 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 1193292004394 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1193292004395 thiosulfate transporter subunit; Provisional; Region: PRK10852 1193292004396 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1193292004397 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1193292004398 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 1193292004399 dimer interface [polypeptide binding]; other site 1193292004400 conserved gate region; other site 1193292004401 putative PBP binding loops; other site 1193292004402 ABC-ATPase subunit interface; other site 1193292004403 sulfate transport protein; Provisional; Region: cysT; CHL00187 1193292004404 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 1193292004405 dimer interface [polypeptide binding]; other site 1193292004406 conserved gate region; other site 1193292004407 putative PBP binding loops; other site 1193292004408 ABC-ATPase subunit interface; other site 1193292004409 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 1193292004410 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1193292004411 Walker A/P-loop; other site 1193292004412 ATP binding site [chemical binding]; other site 1193292004413 Q-loop/lid; other site 1193292004414 ABC transporter signature motif; other site 1193292004415 Walker B; other site 1193292004416 D-loop; other site 1193292004417 H-loop/switch region; other site 1193292004418 TOBE-like domain; Region: TOBE_3; pfam12857 1193292004419 cysteine synthase B; Region: cysM; TIGR01138 1193292004420 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 1193292004421 dimer interface [polypeptide binding]; other site 1193292004422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292004423 catalytic residue [active] 1193292004424 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1193292004425 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 1193292004426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292004427 DNA-binding site [nucleotide binding]; DNA binding site 1193292004428 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 1193292004429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292004430 homodimer interface [polypeptide binding]; other site 1193292004431 catalytic residue [active] 1193292004432 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 1193292004433 dimer interface [polypeptide binding]; other site 1193292004434 pyridoxamine kinase; Validated; Region: PRK05756 1193292004435 pyridoxal binding site [chemical binding]; other site 1193292004436 ATP binding site [chemical binding]; other site 1193292004437 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 1193292004438 HPr interaction site; other site 1193292004439 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1193292004440 active site 1193292004441 phosphorylation site [posttranslational modification] 1193292004442 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1193292004443 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1193292004444 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1193292004445 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1193292004446 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 1193292004447 dimerization domain swap beta strand [polypeptide binding]; other site 1193292004448 regulatory protein interface [polypeptide binding]; other site 1193292004449 active site 1193292004450 regulatory phosphorylation site [posttranslational modification]; other site 1193292004451 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1193292004452 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 1193292004453 dimer interface [polypeptide binding]; other site 1193292004454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292004455 catalytic residue [active] 1193292004456 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1193292004457 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 1193292004458 cell division protein ZipA; Provisional; Region: PRK03427 1193292004459 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 1193292004460 FtsZ protein binding site [polypeptide binding]; other site 1193292004461 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1193292004462 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 1193292004463 nucleotide binding pocket [chemical binding]; other site 1193292004464 K-X-D-G motif; other site 1193292004465 catalytic site [active] 1193292004466 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1193292004467 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1193292004468 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 1193292004469 Dimer interface [polypeptide binding]; other site 1193292004470 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1193292004471 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1193292004472 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1193292004473 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292004474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292004475 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1193292004476 putative dimerization interface [polypeptide binding]; other site 1193292004477 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1193292004478 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1193292004479 active site 1193292004480 HIGH motif; other site 1193292004481 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1193292004482 active site 1193292004483 KMSKS motif; other site 1193292004484 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 1193292004485 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 1193292004486 MASE1; Region: MASE1; pfam05231 1193292004487 diguanylate cyclase; Region: GGDEF; smart00267 1193292004488 metal binding site [ion binding]; metal-binding site 1193292004489 nucleotidyl binding site; other site 1193292004490 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292004491 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1193292004492 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1193292004493 Nucleoside recognition; Region: Gate; pfam07670 1193292004494 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1193292004495 manganese transport protein MntH; Reviewed; Region: PRK00701 1193292004496 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1193292004497 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 1193292004498 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 1193292004499 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292004500 active site 1193292004501 catalytic tetrad [active] 1193292004502 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 1193292004503 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 1193292004504 dimer interface [polypeptide binding]; other site 1193292004505 PYR/PP interface [polypeptide binding]; other site 1193292004506 TPP binding site [chemical binding]; other site 1193292004507 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1193292004508 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 1193292004509 TPP-binding site [chemical binding]; other site 1193292004510 dimer interface [polypeptide binding]; other site 1193292004511 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1193292004512 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1193292004513 Cl- selectivity filter; other site 1193292004514 Cl- binding residues [ion binding]; other site 1193292004515 pore gating glutamate residue; other site 1193292004516 dimer interface [polypeptide binding]; other site 1193292004517 glucokinase; Provisional; Region: glk; PRK00292 1193292004518 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1193292004519 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 1193292004520 active site 1193292004521 phosphorylation site [posttranslational modification] 1193292004522 intermolecular recognition site; other site 1193292004523 dimerization interface [polypeptide binding]; other site 1193292004524 LytTr DNA-binding domain; Region: LytTR; pfam04397 1193292004525 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1193292004526 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1193292004527 Histidine kinase; Region: His_kinase; pfam06580 1193292004528 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 1193292004529 ATP binding site [chemical binding]; other site 1193292004530 Mg2+ binding site [ion binding]; other site 1193292004531 G-X-G motif; other site 1193292004532 aminotransferase; Validated; Region: PRK08175 1193292004533 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 1193292004534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292004535 homodimer interface [polypeptide binding]; other site 1193292004536 catalytic residue [active] 1193292004537 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1193292004538 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 1193292004539 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 1193292004540 nucleoside/Zn binding site; other site 1193292004541 dimer interface [polypeptide binding]; other site 1193292004542 catalytic motif [active] 1193292004543 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1193292004544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292004545 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 1193292004546 dimerization interface [polypeptide binding]; other site 1193292004547 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1193292004548 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1193292004549 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 1193292004550 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 1193292004551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 1193292004552 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1193292004553 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1193292004554 dimer interface [polypeptide binding]; other site 1193292004555 active site 1193292004556 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1193292004557 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 1193292004558 substrate binding site [chemical binding]; other site 1193292004559 oxyanion hole (OAH) forming residues; other site 1193292004560 trimer interface [polypeptide binding]; other site 1193292004561 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1193292004562 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1193292004563 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1193292004564 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 1193292004565 catalytic core [active] 1193292004566 HemK family putative methylases; Region: hemK_fam; TIGR00536 1193292004567 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 1193292004568 S-adenosylmethionine binding site [chemical binding]; other site 1193292004569 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1193292004570 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1193292004571 Tetramer interface [polypeptide binding]; other site 1193292004572 active site 1193292004573 FMN-binding site [chemical binding]; other site 1193292004574 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1193292004575 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1193292004576 hypothetical protein; Provisional; Region: PRK10621 1193292004577 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1193292004578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 1193292004579 YfcL protein; Region: YfcL; pfam08891 1193292004580 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1193292004581 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1193292004582 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1193292004583 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1193292004584 dimer interface [polypeptide binding]; other site 1193292004585 active site 1193292004586 putative transporter; Provisional; Region: PRK12382 1193292004587 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 1193292004588 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 1193292004589 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1193292004590 ligand binding site [chemical binding]; other site 1193292004591 NAD binding site [chemical binding]; other site 1193292004592 catalytic site [active] 1193292004593 homodimer interface [polypeptide binding]; other site 1193292004594 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 1193292004595 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1193292004596 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1193292004597 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1193292004598 dimerization interface 3.5A [polypeptide binding]; other site 1193292004599 active site 1193292004600 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1193292004601 hypothetical protein; Provisional; Region: PRK10847 1193292004602 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1193292004603 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1193292004604 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1193292004605 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1193292004606 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1193292004607 cell division protein DedD; Provisional; Region: PRK11633 1193292004608 Sporulation related domain; Region: SPOR; pfam05036 1193292004609 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1193292004610 colicin V production protein; Provisional; Region: PRK10845 1193292004611 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1193292004612 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 1193292004613 active site 1193292004614 tetramer interface [polypeptide binding]; other site 1193292004615 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1193292004616 active site 1193292004617 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1193292004618 Flavoprotein; Region: Flavoprotein; pfam02441 1193292004619 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 1193292004620 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 1193292004621 substrate binding pocket [chemical binding]; other site 1193292004622 membrane-bound complex binding site; other site 1193292004623 hinge residues; other site 1193292004624 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 1193292004625 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 1193292004626 substrate binding pocket [chemical binding]; other site 1193292004627 membrane-bound complex binding site; other site 1193292004628 hinge residues; other site 1193292004629 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292004630 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 1193292004631 dimer interface [polypeptide binding]; other site 1193292004632 conserved gate region; other site 1193292004633 putative PBP binding loops; other site 1193292004634 ABC-ATPase subunit interface; other site 1193292004635 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292004636 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 1193292004637 dimer interface [polypeptide binding]; other site 1193292004638 conserved gate region; other site 1193292004639 putative PBP binding loops; other site 1193292004640 ABC-ATPase subunit interface; other site 1193292004641 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 1193292004642 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292004643 Walker A/P-loop; other site 1193292004644 ATP binding site [chemical binding]; other site 1193292004645 Q-loop/lid; other site 1193292004646 ABC transporter signature motif; other site 1193292004647 Walker B; other site 1193292004648 D-loop; other site 1193292004649 H-loop/switch region; other site 1193292004650 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1193292004651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292004652 Coenzyme A binding pocket [chemical binding]; other site 1193292004653 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1193292004654 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1193292004655 putative NAD(P) binding site [chemical binding]; other site 1193292004656 putative active site [active] 1193292004657 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 1193292004658 homooctamer interface [polypeptide binding]; other site 1193292004659 active site 1193292004660 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1193292004661 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1193292004662 C-terminal domain interface [polypeptide binding]; other site 1193292004663 GSH binding site (G-site) [chemical binding]; other site 1193292004664 dimer interface [polypeptide binding]; other site 1193292004665 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1193292004666 N-terminal domain interface [polypeptide binding]; other site 1193292004667 putative dimer interface [polypeptide binding]; other site 1193292004668 active site 1193292004669 glutathione S-transferase; Provisional; Region: PRK15113 1193292004670 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1193292004671 C-terminal domain interface [polypeptide binding]; other site 1193292004672 GSH binding site (G-site) [chemical binding]; other site 1193292004673 dimer interface [polypeptide binding]; other site 1193292004674 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 1193292004675 N-terminal domain interface [polypeptide binding]; other site 1193292004676 putative dimer interface [polypeptide binding]; other site 1193292004677 putative substrate binding pocket (H-site) [chemical binding]; other site 1193292004678 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1193292004679 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1193292004680 active site 1193292004681 metal binding site [ion binding]; metal-binding site 1193292004682 homotetramer interface [polypeptide binding]; other site 1193292004683 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 1193292004684 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_38; cd04697 1193292004685 nudix motif; other site 1193292004686 phosphate acetyltransferase; Reviewed; Region: PRK05632 1193292004687 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 1193292004688 DRTGG domain; Region: DRTGG; pfam07085 1193292004689 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1193292004690 propionate/acetate kinase; Provisional; Region: PRK12379 1193292004691 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1193292004692 hypothetical protein; Provisional; Region: PRK01816 1193292004693 hypothetical protein; Validated; Region: PRK05445 1193292004694 putative phosphatase; Provisional; Region: PRK11587 1193292004695 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 1193292004696 motif II; other site 1193292004697 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 1193292004698 transmembrane helices; other site 1193292004699 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1193292004700 TrkA-C domain; Region: TrkA_C; pfam02080 1193292004701 TrkA-C domain; Region: TrkA_C; pfam02080 1193292004702 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1193292004703 5'-nucleotidase; Provisional; Region: PRK03826 1193292004704 aminotransferase AlaT; Validated; Region: PRK09265 1193292004705 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 1193292004706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292004707 homodimer interface [polypeptide binding]; other site 1193292004708 catalytic residue [active] 1193292004709 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1193292004710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292004711 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1193292004712 putative dimerization interface [polypeptide binding]; other site 1193292004713 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1193292004714 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1193292004715 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1193292004716 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1193292004717 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1193292004718 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1193292004719 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1193292004720 putative dimer interface [polypeptide binding]; other site 1193292004721 [2Fe-2S] cluster binding site [ion binding]; other site 1193292004722 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1193292004723 SLBB domain; Region: SLBB; pfam10531 1193292004724 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1193292004725 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1193292004726 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1193292004727 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1193292004728 [4Fe-4S] binding site [ion binding]; other site 1193292004729 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 1193292004730 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1193292004731 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1193292004732 4Fe-4S binding domain; Region: Fer4; pfam00037 1193292004733 4Fe-4S binding domain; Region: Fer4; pfam00037 1193292004734 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1193292004735 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1193292004736 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1193292004737 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1193292004738 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1193292004739 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1193292004740 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1193292004741 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1193292004742 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1193292004743 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1193292004744 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1193292004745 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1193292004746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292004747 Coenzyme A binding pocket [chemical binding]; other site 1193292004748 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 1193292004749 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1193292004750 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1193292004751 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 1193292004752 dimer interface [polypeptide binding]; other site 1193292004753 tetramer interface [polypeptide binding]; other site 1193292004754 PYR/PP interface [polypeptide binding]; other site 1193292004755 TPP binding site [chemical binding]; other site 1193292004756 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 1193292004757 TPP-binding site; other site 1193292004758 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1193292004759 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 1193292004760 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1193292004761 substrate binding site [chemical binding]; other site 1193292004762 oxyanion hole (OAH) forming residues; other site 1193292004763 trimer interface [polypeptide binding]; other site 1193292004764 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1193292004765 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 1193292004766 active site 1193292004767 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1193292004768 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1193292004769 acyl-activating enzyme (AAE) consensus motif; other site 1193292004770 putative AMP binding site [chemical binding]; other site 1193292004771 putative active site [active] 1193292004772 putative CoA binding site [chemical binding]; other site 1193292004773 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 1193292004774 putative transposase; Provisional; Region: PRK09857 1193292004775 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1193292004776 YfaZ precursor; Region: YfaZ; pfam07437 1193292004777 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1193292004778 hypothetical protein; Provisional; Region: PRK03673 1193292004779 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1193292004780 putative MPT binding site; other site 1193292004781 Competence-damaged protein; Region: CinA; cl00666 1193292004782 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1193292004783 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1193292004784 Bacterial transcriptional regulator; Region: IclR; pfam01614 1193292004785 L-rhamnonate dehydratase; Provisional; Region: PRK15440 1193292004786 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 1193292004787 putative active site pocket [active] 1193292004788 putative metal binding site [ion binding]; other site 1193292004789 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1193292004790 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 1193292004791 putative substrate translocation pore; other site 1193292004792 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 1193292004793 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 1193292004794 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1193292004795 Cysteine-rich domain; Region: CCG; pfam02754 1193292004796 Cysteine-rich domain; Region: CCG; pfam02754 1193292004797 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 1193292004798 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 1193292004799 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 1193292004800 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1193292004801 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1193292004802 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1193292004803 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 1193292004804 putative substrate translocation pore; other site 1193292004805 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1193292004806 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1193292004807 active site 1193292004808 catalytic site [active] 1193292004809 metal binding site [ion binding]; metal-binding site 1193292004810 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1193292004811 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292004812 catalytic loop [active] 1193292004813 iron binding site [ion binding]; other site 1193292004814 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1193292004815 dimer interface [polypeptide binding]; other site 1193292004816 putative radical transfer pathway; other site 1193292004817 diiron center [ion binding]; other site 1193292004818 tyrosyl radical; other site 1193292004819 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1193292004820 ATP cone domain; Region: ATP-cone; pfam03477 1193292004821 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1193292004822 active site 1193292004823 dimer interface [polypeptide binding]; other site 1193292004824 catalytic residues [active] 1193292004825 effector binding site; other site 1193292004826 R2 peptide binding site; other site 1193292004827 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1193292004828 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 1193292004829 S-adenosylmethionine binding site [chemical binding]; other site 1193292004830 DNA gyrase subunit A; Validated; Region: PRK05560 1193292004831 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 1193292004832 CAP-like domain; other site 1193292004833 active site 1193292004834 primary dimer interface [polypeptide binding]; other site 1193292004835 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1193292004836 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1193292004837 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1193292004838 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1193292004839 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1193292004840 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1193292004841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 1193292004842 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 1193292004843 dimer interface [polypeptide binding]; other site 1193292004844 phosphorylation site [posttranslational modification] 1193292004845 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 1193292004846 ATP binding site [chemical binding]; other site 1193292004847 Mg2+ binding site [ion binding]; other site 1193292004848 G-X-G motif; other site 1193292004849 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 1193292004850 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 1193292004851 active site 1193292004852 phosphorylation site [posttranslational modification] 1193292004853 intermolecular recognition site; other site 1193292004854 dimerization interface [polypeptide binding]; other site 1193292004855 transcriptional regulator RcsB; Provisional; Region: PRK10840 1193292004856 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 1193292004857 active site 1193292004858 phosphorylation site [posttranslational modification] 1193292004859 intermolecular recognition site; other site 1193292004860 dimerization interface [polypeptide binding]; other site 1193292004861 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 1193292004862 DNA binding residues [nucleotide binding] 1193292004863 dimerization interface [polypeptide binding]; other site 1193292004864 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 1193292004865 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 1193292004866 ATP binding site [chemical binding]; other site 1193292004867 Mg2+ binding site [ion binding]; other site 1193292004868 G-X-G motif; other site 1193292004869 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1193292004870 putative binding surface; other site 1193292004871 active site 1193292004872 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1193292004873 outer membrane porin protein C; Provisional; Region: PRK10554 1193292004874 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 1193292004875 ApbE family; Region: ApbE; pfam02424 1193292004876 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1193292004877 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1193292004878 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292004879 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292004880 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1193292004881 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 1193292004882 DNA binding site [nucleotide binding] 1193292004883 active site 1193292004884 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1193292004885 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 1193292004886 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1193292004887 Walker A/P-loop; other site 1193292004888 ATP binding site [chemical binding]; other site 1193292004889 Q-loop/lid; other site 1193292004890 ABC transporter signature motif; other site 1193292004891 Walker B; other site 1193292004892 D-loop; other site 1193292004893 H-loop/switch region; other site 1193292004894 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1193292004895 MgtE intracellular N domain; Region: MgtE_N; smart00924 1193292004896 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 1193292004897 Divalent cation transporter; Region: MgtE; cl00786 1193292004898 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1193292004899 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1193292004900 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1193292004901 malate:quinone oxidoreductase; Validated; Region: PRK05257 1193292004902 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1193292004903 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 1193292004904 secondary substrate binding site; other site 1193292004905 primary substrate binding site; other site 1193292004906 inhibition loop; other site 1193292004907 dimerization interface [polypeptide binding]; other site 1193292004908 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1193292004909 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1193292004910 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1193292004911 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1193292004912 Sulfatase; Region: Sulfatase; cl17466 1193292004913 hypothetical protein; Provisional; Region: PRK13689 1193292004914 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1193292004915 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1193292004916 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292004917 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292004918 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292004919 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1193292004920 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 1193292004921 dimer interface [polypeptide binding]; other site 1193292004922 ADP-ribose binding site [chemical binding]; other site 1193292004923 active site 1193292004924 nudix motif; other site 1193292004925 metal binding site [ion binding]; metal-binding site 1193292004926 Beta-lactamase; Region: Beta-lactamase; pfam00144 1193292004927 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1193292004928 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292004929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292004930 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 1193292004931 dimerization interface [polypeptide binding]; other site 1193292004932 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1193292004933 5S rRNA interface [nucleotide binding]; other site 1193292004934 CTC domain interface [polypeptide binding]; other site 1193292004935 L16 interface [polypeptide binding]; other site 1193292004936 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1193292004937 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 1193292004938 ATP binding site [chemical binding]; other site 1193292004939 putative Mg++ binding site [ion binding]; other site 1193292004940 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 1193292004941 nucleotide binding region [chemical binding]; other site 1193292004942 ATP-binding site [chemical binding]; other site 1193292004943 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1193292004944 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 1193292004945 RNA binding surface [nucleotide binding]; other site 1193292004946 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1193292004947 active site 1193292004948 uracil binding [chemical binding]; other site 1193292004949 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 1193292004950 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1193292004951 putative substrate translocation pore; other site 1193292004952 hypothetical protein; Provisional; Region: PRK11835 1193292004953 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 1193292004954 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292004955 Walker A/P-loop; other site 1193292004956 ATP binding site [chemical binding]; other site 1193292004957 Q-loop/lid; other site 1193292004958 ABC transporter signature motif; other site 1193292004959 Walker B; other site 1193292004960 D-loop; other site 1193292004961 H-loop/switch region; other site 1193292004962 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292004963 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292004964 Walker A/P-loop; other site 1193292004965 ATP binding site [chemical binding]; other site 1193292004966 Q-loop/lid; other site 1193292004967 ABC transporter signature motif; other site 1193292004968 Walker B; other site 1193292004969 D-loop; other site 1193292004970 H-loop/switch region; other site 1193292004971 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292004972 microcin C ABC transporter permease; Provisional; Region: PRK15021 1193292004973 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 1193292004974 dimer interface [polypeptide binding]; other site 1193292004975 conserved gate region; other site 1193292004976 ABC-ATPase subunit interface; other site 1193292004977 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1193292004978 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 1193292004979 dimer interface [polypeptide binding]; other site 1193292004980 conserved gate region; other site 1193292004981 putative PBP binding loops; other site 1193292004982 ABC-ATPase subunit interface; other site 1193292004983 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1193292004984 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_14; cd08497 1193292004985 phage resistance protein; Provisional; Region: PRK10551 1193292004986 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1193292004987 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292004988 NlpC/P60 family; Region: NLPC_P60; pfam00877 1193292004989 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1193292004990 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 1193292004991 active site 1193292004992 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1193292004993 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1193292004994 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1193292004995 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1193292004996 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1193292004997 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1193292004998 mannonate dehydratase; Provisional; Region: PRK03906 1193292004999 mannonate dehydratase; Region: uxuA; TIGR00695 1193292005000 elongation factor P; Provisional; Region: PRK04542 1193292005001 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1193292005002 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 1193292005003 RNA binding site [nucleotide binding]; other site 1193292005004 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 1193292005005 RNA binding site [nucleotide binding]; other site 1193292005006 sugar efflux transporter B; Provisional; Region: PRK15011 1193292005007 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 1193292005008 putative substrate translocation pore; other site 1193292005009 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1193292005010 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 1193292005011 active site 1193292005012 phosphorylation site [posttranslational modification] 1193292005013 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 1193292005014 dimerization domain swap beta strand [polypeptide binding]; other site 1193292005015 regulatory protein interface [polypeptide binding]; other site 1193292005016 active site 1193292005017 regulatory phosphorylation site [posttranslational modification]; other site 1193292005018 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1193292005019 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 1193292005020 putative substrate binding site [chemical binding]; other site 1193292005021 putative ATP binding site [chemical binding]; other site 1193292005022 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1193292005023 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1193292005024 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 1193292005025 active site 1193292005026 P-loop; other site 1193292005027 phosphorylation site [posttranslational modification] 1193292005028 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 1193292005029 endonuclease IV; Provisional; Region: PRK01060 1193292005030 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1193292005031 DNA interaction; other site 1193292005032 Metal-binding active site; metal-binding site 1193292005033 AP (apurinic/apyrimidinic) site pocket; other site 1193292005034 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1193292005035 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1193292005036 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292005037 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1193292005038 putative dimerization interface [polypeptide binding]; other site 1193292005039 lysine transporter; Provisional; Region: PRK10836 1193292005040 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 1193292005041 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292005042 N-terminal plug; other site 1193292005043 ligand-binding site [chemical binding]; other site 1193292005044 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1193292005045 S-formylglutathione hydrolase; Region: PLN02442 1193292005046 GTP cyclohydrolase I; Provisional; Region: PLN03044 1193292005047 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1193292005048 active site 1193292005049 Predicted membrane protein [Function unknown]; Region: COG2311 1193292005050 hypothetical protein; Provisional; Region: PRK10835 1193292005051 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 1193292005052 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292005053 DNA binding site [nucleotide binding] 1193292005054 domain linker motif; other site 1193292005055 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1193292005056 dimerization interface (closed form) [polypeptide binding]; other site 1193292005057 ligand binding site [chemical binding]; other site 1193292005058 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1193292005059 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1193292005060 ligand binding site [chemical binding]; other site 1193292005061 calcium binding site [ion binding]; other site 1193292005062 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292005063 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1193292005064 Walker A/P-loop; other site 1193292005065 ATP binding site [chemical binding]; other site 1193292005066 Q-loop/lid; other site 1193292005067 ABC transporter signature motif; other site 1193292005068 Walker B; other site 1193292005069 D-loop; other site 1193292005070 H-loop/switch region; other site 1193292005071 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292005072 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292005073 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 1193292005074 TM-ABC transporter signature motif; other site 1193292005075 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 1193292005076 putative active site [active] 1193292005077 cytidine deaminase; Provisional; Region: PRK09027 1193292005078 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 1193292005079 active site 1193292005080 catalytic motif [active] 1193292005081 Zn binding site [ion binding]; other site 1193292005082 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 1193292005083 active site 1193292005084 catalytic motif [active] 1193292005085 Zn binding site [ion binding]; other site 1193292005086 hypothetical protein; Provisional; Region: PRK10711 1193292005087 hypothetical protein; Provisional; Region: PRK01821 1193292005088 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1193292005089 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 1193292005090 FMN binding site [chemical binding]; other site 1193292005091 active site 1193292005092 catalytic residues [active] 1193292005093 substrate binding site [chemical binding]; other site 1193292005094 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1193292005095 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1193292005096 CAT RNA binding domain; Region: CAT_RBD; smart01061 1193292005097 PRD domain; Region: PRD; pfam00874 1193292005098 PRD domain; Region: PRD; pfam00874 1193292005099 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 1193292005100 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 1193292005101 active site turn [active] 1193292005102 phosphorylation site [posttranslational modification] 1193292005103 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1193292005104 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 1193292005105 HPr interaction site; other site 1193292005106 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1193292005107 active site 1193292005108 phosphorylation site [posttranslational modification] 1193292005109 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1193292005110 beta-galactosidase; Region: BGL; TIGR03356 1193292005111 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 1193292005112 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1193292005113 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1193292005114 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1193292005115 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1193292005116 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1193292005117 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1193292005118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292005119 Coenzyme A binding pocket [chemical binding]; other site 1193292005120 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1193292005121 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1193292005122 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1193292005123 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1193292005124 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 1193292005125 conserved gate region; other site 1193292005126 ABC-ATPase subunit interface; other site 1193292005127 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1193292005128 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1193292005129 Walker A/P-loop; other site 1193292005130 ATP binding site [chemical binding]; other site 1193292005131 Q-loop/lid; other site 1193292005132 ABC transporter signature motif; other site 1193292005133 Walker B; other site 1193292005134 D-loop; other site 1193292005135 H-loop/switch region; other site 1193292005136 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 1193292005137 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 1193292005138 dimer interface [polypeptide binding]; other site 1193292005139 conserved gate region; other site 1193292005140 putative PBP binding loops; other site 1193292005141 ABC-ATPase subunit interface; other site 1193292005142 hypothetical protein; Provisional; Region: PRK13681 1193292005143 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1193292005144 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1193292005145 GAF domain; Region: GAF; pfam01590 1193292005146 Histidine kinase; Region: His_kinase; pfam06580 1193292005147 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 1193292005148 ATP binding site [chemical binding]; other site 1193292005149 Mg2+ binding site [ion binding]; other site 1193292005150 G-X-G motif; other site 1193292005151 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1193292005152 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 1193292005153 active site 1193292005154 phosphorylation site [posttranslational modification] 1193292005155 intermolecular recognition site; other site 1193292005156 dimerization interface [polypeptide binding]; other site 1193292005157 LytTr DNA-binding domain; Region: LytTR; pfam04397 1193292005158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1193292005159 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1193292005160 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1193292005161 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1193292005162 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1193292005163 active site 1193292005164 KMSKS motif; other site 1193292005165 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1193292005166 tRNA binding surface [nucleotide binding]; other site 1193292005167 anticodon binding site; other site 1193292005168 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1193292005169 dimer interface [polypeptide binding]; other site 1193292005170 putative tRNA-binding site [nucleotide binding]; other site 1193292005171 antiporter inner membrane protein; Provisional; Region: PRK11670 1193292005172 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 1193292005173 Walker A motif; other site 1193292005174 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292005175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292005176 Coenzyme A binding pocket [chemical binding]; other site 1193292005177 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1193292005178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292005179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292005180 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292005181 putative effector binding pocket; other site 1193292005182 dimerization interface [polypeptide binding]; other site 1193292005183 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1193292005184 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1193292005185 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 1193292005186 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1193292005187 active site 1193292005188 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1193292005189 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1193292005190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292005191 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 1193292005192 dimerization interface [polypeptide binding]; other site 1193292005193 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1193292005194 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1193292005195 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1193292005196 Transcriptional regulator; Region: Rrf2; cl17282 1193292005197 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1193292005198 Alginate lyase; Region: Alginate_lyase; pfam05426 1193292005199 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1193292005200 substrate binding site [chemical binding]; other site 1193292005201 multimerization interface [polypeptide binding]; other site 1193292005202 ATP binding site [chemical binding]; other site 1193292005203 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1193292005204 dimer interface [polypeptide binding]; other site 1193292005205 substrate binding site [chemical binding]; other site 1193292005206 ATP binding site [chemical binding]; other site 1193292005207 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 1193292005208 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1193292005209 putative active site; other site 1193292005210 catalytic residue [active] 1193292005211 polyol permease family; Region: 2A0118; TIGR00897 1193292005212 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 1193292005213 putative substrate translocation pore; other site 1193292005214 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1193292005215 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 1193292005216 N- and C-terminal domain interface [polypeptide binding]; other site 1193292005217 active site 1193292005218 MgATP binding site [chemical binding]; other site 1193292005219 catalytic site [active] 1193292005220 metal binding site [ion binding]; metal-binding site 1193292005221 carbohydrate binding site [chemical binding]; other site 1193292005222 putative homodimer interface [polypeptide binding]; other site 1193292005223 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1193292005224 classical (c) SDRs; Region: SDR_c; cd05233 1193292005225 NAD(P) binding site [chemical binding]; other site 1193292005226 active site 1193292005227 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292005228 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292005229 DNA binding site [nucleotide binding] 1193292005230 domain linker motif; other site 1193292005231 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1193292005232 dimerization interface [polypeptide binding]; other site 1193292005233 ligand binding site [chemical binding]; other site 1193292005234 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1193292005235 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; cl17320 1193292005236 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1193292005237 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1193292005238 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1193292005239 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1193292005240 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1193292005241 N- and C-terminal domain interface [polypeptide binding]; other site 1193292005242 D-xylulose kinase; Region: XylB; TIGR01312 1193292005243 active site 1193292005244 MgATP binding site [chemical binding]; other site 1193292005245 catalytic site [active] 1193292005246 metal binding site [ion binding]; metal-binding site 1193292005247 xylulose binding site [chemical binding]; other site 1193292005248 homodimer interface [polypeptide binding]; other site 1193292005249 polyol permease family; Region: 2A0118; TIGR00897 1193292005250 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 1193292005251 putative substrate translocation pore; other site 1193292005252 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1193292005253 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1193292005254 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 1193292005255 motif II; other site 1193292005256 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1193292005257 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 1193292005258 putative active site pocket [active] 1193292005259 metal binding site [ion binding]; metal-binding site 1193292005260 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1193292005261 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_7; cd08512 1193292005262 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1193292005263 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 1193292005264 dimer interface [polypeptide binding]; other site 1193292005265 conserved gate region; other site 1193292005266 putative PBP binding loops; other site 1193292005267 ABC-ATPase subunit interface; other site 1193292005268 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1193292005269 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1193292005270 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 1193292005271 dimer interface [polypeptide binding]; other site 1193292005272 conserved gate region; other site 1193292005273 ABC-ATPase subunit interface; other site 1193292005274 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1193292005275 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292005276 Walker A/P-loop; other site 1193292005277 ATP binding site [chemical binding]; other site 1193292005278 Q-loop/lid; other site 1193292005279 ABC transporter signature motif; other site 1193292005280 Walker B; other site 1193292005281 D-loop; other site 1193292005282 H-loop/switch region; other site 1193292005283 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292005284 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1193292005285 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292005286 Walker A/P-loop; other site 1193292005287 ATP binding site [chemical binding]; other site 1193292005288 Q-loop/lid; other site 1193292005289 ABC transporter signature motif; other site 1193292005290 Walker B; other site 1193292005291 D-loop; other site 1193292005292 H-loop/switch region; other site 1193292005293 lipid kinase; Reviewed; Region: PRK13054 1193292005294 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1193292005295 putative protease; Provisional; Region: PRK15452 1193292005296 Peptidase family U32; Region: Peptidase_U32; pfam01136 1193292005297 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 1193292005298 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 1193292005299 active site 1193292005300 phosphorylation site [posttranslational modification] 1193292005301 intermolecular recognition site; other site 1193292005302 dimerization interface [polypeptide binding]; other site 1193292005303 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 1193292005304 DNA binding site [nucleotide binding] 1193292005305 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 1193292005306 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 1193292005307 dimerization interface [polypeptide binding]; other site 1193292005308 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 1193292005309 dimer interface [polypeptide binding]; other site 1193292005310 phosphorylation site [posttranslational modification] 1193292005311 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 1193292005312 ATP binding site [chemical binding]; other site 1193292005313 Mg2+ binding site [ion binding]; other site 1193292005314 G-X-G motif; other site 1193292005315 putative transporter; Provisional; Region: PRK10504 1193292005316 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 1193292005317 putative substrate translocation pore; other site 1193292005318 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 1193292005319 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1193292005320 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1193292005321 Protein export membrane protein; Region: SecD_SecF; cl14618 1193292005322 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 1193292005323 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292005324 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292005325 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1193292005326 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1193292005327 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; cl17315 1193292005328 DNA binding residues [nucleotide binding] 1193292005329 transcriptional regulator PhoB; Provisional; Region: PRK10161 1193292005330 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 1193292005331 active site 1193292005332 phosphorylation site [posttranslational modification] 1193292005333 intermolecular recognition site; other site 1193292005334 dimerization interface [polypeptide binding]; other site 1193292005335 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1193292005336 DNA binding site [nucleotide binding] 1193292005337 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1193292005338 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1193292005339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1193292005340 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 1193292005341 dimer interface [polypeptide binding]; other site 1193292005342 phosphorylation site [posttranslational modification] 1193292005343 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 1193292005344 ATP binding site [chemical binding]; other site 1193292005345 Mg2+ binding site [ion binding]; other site 1193292005346 G-X-G motif; other site 1193292005347 putative chaperone; Provisional; Region: PRK11678 1193292005348 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1193292005349 nucleotide binding site [chemical binding]; other site 1193292005350 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1193292005351 SBD interface [polypeptide binding]; other site 1193292005352 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1193292005353 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1193292005354 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1193292005355 minor groove reading motif; other site 1193292005356 helix-hairpin-helix signature motif; other site 1193292005357 substrate binding pocket [chemical binding]; other site 1193292005358 active site 1193292005359 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1193292005360 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1193292005361 ATP-binding site [chemical binding]; other site 1193292005362 Sugar specificity; other site 1193292005363 Pyrimidine base specificity; other site 1193292005364 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1193292005365 trimer interface [polypeptide binding]; other site 1193292005366 active site 1193292005367 putative assembly protein; Provisional; Region: PRK10833 1193292005368 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1193292005369 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1193292005370 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1193292005371 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 1193292005372 Transporter associated domain; Region: CorC_HlyC; smart01091 1193292005373 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1193292005374 active site 1193292005375 tetramer interface; other site 1193292005376 Acid phosphatase homologues; Region: acidPPc; smart00014 1193292005377 active site 1193292005378 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 1193292005379 polysaccharide export protein Wza; Provisional; Region: PRK15078 1193292005380 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1193292005381 SLBB domain; Region: SLBB; pfam10531 1193292005382 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1193292005383 tyrosine kinase; Provisional; Region: PRK11519 1193292005384 Chain length determinant protein; Region: Wzz; pfam02706 1193292005385 Chain length determinant protein; Region: Wzz; cl15801 1193292005386 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1193292005387 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1193292005388 Nucleotide binding site [chemical binding]; other site 1193292005389 DTAP/Switch II; other site 1193292005390 Switch I; other site 1193292005391 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1193292005392 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1193292005393 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1193292005394 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1193292005395 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1193292005396 NADP-binding site; other site 1193292005397 homotetramer interface [polypeptide binding]; other site 1193292005398 substrate binding site [chemical binding]; other site 1193292005399 homodimer interface [polypeptide binding]; other site 1193292005400 active site 1193292005401 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1193292005402 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1193292005403 NADP binding site [chemical binding]; other site 1193292005404 active site 1193292005405 putative substrate binding site [chemical binding]; other site 1193292005406 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 1193292005407 active site 1193292005408 GDP-Mannose binding site [chemical binding]; other site 1193292005409 dimer interface [polypeptide binding]; other site 1193292005410 modified nudix motif 1193292005411 metal binding site [ion binding]; metal-binding site 1193292005412 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1193292005413 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 1193292005414 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1193292005415 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1193292005416 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1193292005417 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1193292005418 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1193292005419 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1193292005420 Substrate binding site; other site 1193292005421 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1193292005422 phosphomannomutase CpsG; Provisional; Region: PRK15414 1193292005423 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 1193292005424 active site 1193292005425 substrate binding site [chemical binding]; other site 1193292005426 metal binding site [ion binding]; metal-binding site 1193292005427 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1193292005428 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1193292005429 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1193292005430 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1193292005431 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1193292005432 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1193292005433 putative NAD(P) binding site [chemical binding]; other site 1193292005434 active site 1193292005435 putative substrate binding site [chemical binding]; other site 1193292005436 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1193292005437 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1193292005438 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1193292005439 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1193292005440 Walker A/P-loop; other site 1193292005441 ATP binding site [chemical binding]; other site 1193292005442 Q-loop/lid; other site 1193292005443 ABC transporter signature motif; other site 1193292005444 Walker B; other site 1193292005445 D-loop; other site 1193292005446 H-loop/switch region; other site 1193292005447 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 1193292005448 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1193292005449 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1193292005450 Ligand binding site; other site 1193292005451 metal-binding site 1193292005452 UDP-galactopyranose mutase; Region: GLF; pfam03275 1193292005453 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1193292005454 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 1193292005455 active site 1193292005456 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1193292005457 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1193292005458 putative ADP-binding pocket [chemical binding]; other site 1193292005459 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1193292005460 active site 1193292005461 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1193292005462 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1193292005463 Ligand binding site; other site 1193292005464 Putative Catalytic site; other site 1193292005465 DXD motif; other site 1193292005466 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1193292005467 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1193292005468 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1193292005469 metal binding site [ion binding]; metal-binding site 1193292005470 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 1193292005471 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1193292005472 substrate binding site [chemical binding]; other site 1193292005473 glutamase interaction surface [polypeptide binding]; other site 1193292005474 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 1193292005475 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1193292005476 catalytic residues [active] 1193292005477 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1193292005478 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1193292005479 putative active site [active] 1193292005480 oxyanion strand; other site 1193292005481 catalytic triad [active] 1193292005482 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1193292005483 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 1193292005484 active site 1193292005485 motif I; other site 1193292005486 motif II; other site 1193292005487 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1193292005488 putative active site pocket [active] 1193292005489 4-fold oligomerization interface [polypeptide binding]; other site 1193292005490 metal binding residues [ion binding]; metal-binding site 1193292005491 3-fold/trimer interface [polypeptide binding]; other site 1193292005492 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1193292005493 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 1193292005494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292005495 homodimer interface [polypeptide binding]; other site 1193292005496 catalytic residue [active] 1193292005497 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1193292005498 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 1193292005499 NAD binding site [chemical binding]; other site 1193292005500 dimerization interface [polypeptide binding]; other site 1193292005501 product binding site; other site 1193292005502 substrate binding site [chemical binding]; other site 1193292005503 zinc binding site [ion binding]; other site 1193292005504 catalytic residues [active] 1193292005505 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1193292005506 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1193292005507 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1193292005508 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1193292005509 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1193292005510 putative NAD(P) binding site [chemical binding]; other site 1193292005511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292005512 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 1193292005513 dimerization interface [polypeptide binding]; other site 1193292005514 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1193292005515 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 1193292005516 dimerization interface [polypeptide binding]; other site 1193292005517 putative DNA binding site [nucleotide binding]; other site 1193292005518 putative Zn2+ binding site [ion binding]; other site 1193292005519 elongation factor G; Reviewed; Region: PRK00007 1193292005520 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1193292005521 G1 box; other site 1193292005522 putative GEF interaction site [polypeptide binding]; other site 1193292005523 GTP/Mg2+ binding site [chemical binding]; other site 1193292005524 Switch I region; other site 1193292005525 G2 box; other site 1193292005526 G3 box; other site 1193292005527 Switch II region; other site 1193292005528 G4 box; other site 1193292005529 G5 box; other site 1193292005530 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 1193292005531 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 1193292005532 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 1193292005533 exonuclease I; Provisional; Region: sbcB; PRK11779 1193292005534 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1193292005535 active site 1193292005536 catalytic site [active] 1193292005537 substrate binding site [chemical binding]; other site 1193292005538 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1193292005539 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1193292005540 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1193292005541 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1193292005542 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1193292005543 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1193292005544 putative active site [active] 1193292005545 putative NTP binding site [chemical binding]; other site 1193292005546 putative nucleic acid binding site [nucleotide binding]; other site 1193292005547 DNA gyrase inhibitor; Provisional; Region: PRK10016 1193292005548 Predicted membrane protein [Function unknown]; Region: COG1289 1193292005549 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1193292005550 hypothetical protein; Provisional; Region: PRK05423 1193292005551 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1193292005552 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1193292005553 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1193292005554 putative dimer interface [polypeptide binding]; other site 1193292005555 active site pocket [active] 1193292005556 putative cataytic base [active] 1193292005557 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1193292005558 NAD binding site [chemical binding]; other site 1193292005559 HPP family; Region: HPP; pfam04982 1193292005560 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1193292005561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292005562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292005563 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292005564 putative effector binding pocket; other site 1193292005565 dimerization interface [polypeptide binding]; other site 1193292005566 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1193292005567 shikimate transporter; Provisional; Region: PRK09952 1193292005568 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 1193292005569 putative substrate translocation pore; other site 1193292005570 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1193292005571 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292005572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292005573 metal binding site [ion binding]; metal-binding site 1193292005574 active site 1193292005575 I-site; other site 1193292005576 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292005577 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 1193292005578 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 1193292005579 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1193292005580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292005581 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1193292005582 dimerization interface [polypeptide binding]; other site 1193292005583 substrate binding pocket [chemical binding]; other site 1193292005584 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1193292005585 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1193292005586 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1193292005587 GAF domain; Region: GAF; pfam01590 1193292005588 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292005589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292005590 metal binding site [ion binding]; metal-binding site 1193292005591 active site 1193292005592 I-site; other site 1193292005593 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1193292005594 active site 1193292005595 substrate binding site [chemical binding]; other site 1193292005596 ATP binding site [chemical binding]; other site 1193292005597 Integrase core domain; Region: rve_2; pfam13333 1193292005598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1193292005599 Integrase core domain; Region: rve; pfam00665 1193292005600 Integrase core domain; Region: rve_3; pfam13683 1193292005601 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1193292005602 DNA-binding interface [nucleotide binding]; DNA binding site 1193292005603 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1193292005604 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1193292005605 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 1193292005606 acyl-activating enzyme (AAE) consensus motif; other site 1193292005607 AMP binding site [chemical binding]; other site 1193292005608 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005609 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 1193292005610 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1193292005611 active site 1193292005612 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1193292005613 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1193292005614 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1193292005615 KR domain; Region: KR; pfam08659 1193292005616 putative NADP binding site [chemical binding]; other site 1193292005617 active site 1193292005618 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1193292005619 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 1193292005620 Enoylreductase; Region: PKS_ER; smart00829 1193292005621 NAD(P) binding site [chemical binding]; other site 1193292005622 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005623 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 1193292005624 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1193292005625 active site 1193292005626 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005627 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1193292005628 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1193292005629 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1193292005630 acyl carrier protein; Provisional; Region: PRK07081 1193292005631 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1193292005632 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1193292005633 active site 1193292005634 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1193292005635 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1193292005636 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1193292005637 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1193292005638 acyl-activating enzyme (AAE) consensus motif; other site 1193292005639 AMP binding site [chemical binding]; other site 1193292005640 Condensation domain; Region: Condensation; pfam00668 1193292005641 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1193292005642 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1193292005643 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1193292005644 acyl-activating enzyme (AAE) consensus motif; other site 1193292005645 AMP binding site [chemical binding]; other site 1193292005646 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005647 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1193292005648 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 1193292005649 active site 1193292005650 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1193292005651 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1193292005652 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005653 Condensation domain; Region: Condensation; pfam00668 1193292005654 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1193292005655 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1193292005656 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 1193292005657 acyl-activating enzyme (AAE) consensus motif; other site 1193292005658 AMP binding site [chemical binding]; other site 1193292005659 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005660 Condensation domain; Region: Condensation; pfam00668 1193292005661 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1193292005662 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1193292005663 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1193292005664 acyl-activating enzyme (AAE) consensus motif; other site 1193292005665 AMP binding site [chemical binding]; other site 1193292005666 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005667 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 1193292005668 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1193292005669 active site 1193292005670 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005671 Condensation domain; Region: Condensation; pfam00668 1193292005672 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1193292005673 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1193292005674 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1193292005675 acyl-activating enzyme (AAE) consensus motif; other site 1193292005676 AMP binding site [chemical binding]; other site 1193292005677 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1193292005678 putative FMN binding site [chemical binding]; other site 1193292005679 NADPH bind site [chemical binding]; other site 1193292005680 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1193292005681 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005682 amidase; Provisional; Region: PRK06170 1193292005683 Amidase; Region: Amidase; cl11426 1193292005684 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_6; cd13146 1193292005685 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1193292005686 Condensation domain; Region: Condensation; pfam00668 1193292005687 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1193292005688 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1193292005689 acyl-activating enzyme (AAE) consensus motif; other site 1193292005690 AMP binding site [chemical binding]; other site 1193292005691 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005692 Condensation domain; Region: Condensation; pfam00668 1193292005693 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1193292005694 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 1193292005695 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1193292005696 active site 1193292005697 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1193292005698 Beta-lactamase; Region: Beta-lactamase; pfam00144 1193292005699 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1193292005700 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 1193292005701 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 1193292005702 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1193292005703 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1193292005704 AAA-like domain; Region: AAA_10; pfam12846 1193292005705 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1193292005706 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1193292005707 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 1193292005708 Walker A motif; other site 1193292005709 hexamer interface [polypeptide binding]; other site 1193292005710 ATP binding site [chemical binding]; other site 1193292005711 Walker B motif; other site 1193292005712 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1193292005713 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1193292005714 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1193292005715 VirB7 interaction site; other site 1193292005716 VirB8 protein; Region: VirB8; pfam04335 1193292005717 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1193292005718 Type IV secretion system proteins; Region: T4SS; pfam07996 1193292005719 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1193292005720 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1193292005721 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1193292005722 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 1193292005723 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1193292005724 catalytic residue [active] 1193292005725 Haemolysin expression modulating protein; Region: HHA; cl11501 1193292005726 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1193292005727 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1193292005728 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292005729 N-terminal plug; other site 1193292005730 ligand-binding site [chemical binding]; other site 1193292005731 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1193292005732 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1193292005733 acyl-activating enzyme (AAE) consensus motif; other site 1193292005734 active site 1193292005735 AMP binding site [chemical binding]; other site 1193292005736 substrate binding site [chemical binding]; other site 1193292005737 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1193292005738 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 1193292005739 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292005740 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 1193292005741 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1193292005742 active site 1193292005743 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1193292005744 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1193292005745 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1193292005746 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 1193292005747 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1193292005748 NADP binding site [chemical binding]; other site 1193292005749 active site 1193292005750 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1193292005751 Condensation domain; Region: Condensation; pfam00668 1193292005752 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1193292005753 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1193292005754 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1193292005755 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005756 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1193292005757 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1193292005758 Condensation domain; Region: Condensation; pfam00668 1193292005759 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1193292005760 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1193292005761 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1193292005762 acyl-activating enzyme (AAE) consensus motif; other site 1193292005763 AMP binding site [chemical binding]; other site 1193292005764 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 1193292005765 S-adenosylmethionine binding site [chemical binding]; other site 1193292005766 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1193292005767 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005768 Condensation domain; Region: Condensation; pfam00668 1193292005769 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1193292005770 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1193292005771 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292005772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292005773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292005774 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1193292005775 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1193292005776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292005777 Walker A/P-loop; other site 1193292005778 ATP binding site [chemical binding]; other site 1193292005779 Q-loop/lid; other site 1193292005780 ABC transporter signature motif; other site 1193292005781 Walker B; other site 1193292005782 D-loop; other site 1193292005783 H-loop/switch region; other site 1193292005784 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1193292005785 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292005786 Walker A/P-loop; other site 1193292005787 ATP binding site [chemical binding]; other site 1193292005788 Q-loop/lid; other site 1193292005789 ABC transporter signature motif; other site 1193292005790 Walker B; other site 1193292005791 D-loop; other site 1193292005792 H-loop/switch region; other site 1193292005793 muropeptide transporter; Validated; Region: ampG; cl17669 1193292005794 salicylate synthase Irp9; Reviewed; Region: PRK06772 1193292005795 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1193292005796 integrase; Provisional; Region: PRK09692 1193292005797 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1193292005798 active site 1193292005799 Int/Topo IB signature motif; other site 1193292005800 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 1193292005801 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1193292005802 putative ligand binding residues [chemical binding]; other site 1193292005803 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292005804 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 1193292005805 ABC-ATPase subunit interface; other site 1193292005806 dimer interface [polypeptide binding]; other site 1193292005807 putative PBP binding regions; other site 1193292005808 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 1193292005809 putative DNA binding helix; other site 1193292005810 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1193292005811 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1193292005812 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1193292005813 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1193292005814 G1 box; other site 1193292005815 GTP/Mg2+ binding site [chemical binding]; other site 1193292005816 G2 box; other site 1193292005817 Switch I region; other site 1193292005818 G3 box; other site 1193292005819 Switch II region; other site 1193292005820 G4 box; other site 1193292005821 G5 box; other site 1193292005822 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1193292005823 Nucleoside recognition; Region: Gate; pfam07670 1193292005824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1193292005825 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1193292005826 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1193292005827 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1193292005828 active site 1193292005829 HIGH motif; other site 1193292005830 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1193292005831 KMSKS motif; other site 1193292005832 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1193292005833 tRNA binding surface [nucleotide binding]; other site 1193292005834 anticodon binding site; other site 1193292005835 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 1193292005836 putative DNA binding helix; other site 1193292005837 metal binding site 2 [ion binding]; metal-binding site 1193292005838 metal binding site 1 [ion binding]; metal-binding site 1193292005839 dimer interface [polypeptide binding]; other site 1193292005840 structural Zn2+ binding site [ion binding]; other site 1193292005841 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1193292005842 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 1193292005843 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1193292005844 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1193292005845 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1193292005846 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1193292005847 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 1193292005848 trimer interface [polypeptide binding]; other site 1193292005849 active site 1193292005850 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1193292005851 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1193292005852 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 1193292005853 ABC-ATPase subunit interface; other site 1193292005854 dimer interface [polypeptide binding]; other site 1193292005855 putative PBP binding regions; other site 1193292005856 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1193292005857 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 1193292005858 ABC-ATPase subunit interface; other site 1193292005859 dimer interface [polypeptide binding]; other site 1193292005860 putative PBP binding regions; other site 1193292005861 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1193292005862 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1193292005863 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1193292005864 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1193292005865 metal binding site [ion binding]; metal-binding site 1193292005866 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1193292005867 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1193292005868 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 1193292005869 active site 1193292005870 dimer interface [polypeptide binding]; other site 1193292005871 motif 1; other site 1193292005872 motif 2; other site 1193292005873 motif 3; other site 1193292005874 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 1193292005875 anticodon binding site; other site 1193292005876 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 1193292005877 putative active site [active] 1193292005878 Zn binding site [ion binding]; other site 1193292005879 dihydroorotase; Reviewed; Region: PRK09236 1193292005880 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 1193292005881 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1193292005882 active site 1193292005883 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_aspartate_rich; cd04823 1193292005884 dimer interface [polypeptide binding]; other site 1193292005885 allosteric magnesium binding site [ion binding]; other site 1193292005886 active site 1193292005887 aspartate-rich active site metal binding site; other site 1193292005888 Schiff base residues; other site 1193292005889 FAD dependent oxidoreductase; Region: DAO; pfam01266 1193292005890 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1193292005891 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 1193292005892 ABC-ATPase subunit interface; other site 1193292005893 dimer interface [polypeptide binding]; other site 1193292005894 putative PBP binding regions; other site 1193292005895 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1193292005896 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1193292005897 metal binding site [ion binding]; metal-binding site 1193292005898 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292005899 Walker B; other site 1193292005900 D-loop; other site 1193292005901 H-loop/switch region; other site 1193292005902 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1193292005903 integrase; Provisional; Region: PRK09692 1193292005904 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1193292005905 active site 1193292005906 Int/Topo IB signature motif; other site 1193292005907 MATE family multidrug exporter; Provisional; Region: PRK10189 1193292005908 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1193292005909 integrase; Provisional; Region: PRK09692 1193292005910 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1193292005911 active site 1193292005912 Int/Topo IB signature motif; other site 1193292005913 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1193292005914 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1193292005915 homodimer interface [polypeptide binding]; other site 1193292005916 active site 1193292005917 TDP-binding site; other site 1193292005918 acceptor substrate-binding pocket; other site 1193292005919 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1193292005920 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1193292005921 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1193292005922 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1193292005923 HlyD family secretion protein; Region: HlyD; pfam00529 1193292005924 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1193292005925 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292005926 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1193292005927 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1193292005928 putative active site [active] 1193292005929 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1193292005930 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1193292005931 Walker A/P-loop; other site 1193292005932 ATP binding site [chemical binding]; other site 1193292005933 Q-loop/lid; other site 1193292005934 ABC transporter signature motif; other site 1193292005935 Walker B; other site 1193292005936 D-loop; other site 1193292005937 H-loop/switch region; other site 1193292005938 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1193292005939 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 1193292005940 S-adenosylmethionine binding site [chemical binding]; other site 1193292005941 Predicted periplasmic protein [Function unknown]; Region: COG3904 1193292005942 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 1193292005943 binding surface 1193292005944 TPR repeat; Region: TPR_11; pfam13414 1193292005945 TPR motif; other site 1193292005946 AAA domain; Region: AAA_23; pfam13476 1193292005947 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 1193292005948 putative active site [active] 1193292005949 putative metal-binding site [ion binding]; other site 1193292005950 AMP nucleosidase; Provisional; Region: PRK08292 1193292005951 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1193292005952 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1193292005953 Polymyxin resistance protein PmrD; Region: PmrD; cl12732 1193292005954 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1193292005955 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1193292005956 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1193292005957 NADP binding site [chemical binding]; other site 1193292005958 dimer interface [polypeptide binding]; other site 1193292005959 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292005960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292005961 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1193292005962 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1193292005963 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 1193292005964 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1193292005965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292005966 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1193292005967 putative dimerization interface [polypeptide binding]; other site 1193292005968 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 1193292005969 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 1193292005970 dimerization interface [polypeptide binding]; other site 1193292005971 L,D-transpeptidase; Provisional; Region: PRK10190 1193292005972 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1193292005973 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292005974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292005975 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1193292005976 putative effector binding pocket; other site 1193292005977 putative dimerization interface [polypeptide binding]; other site 1193292005978 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 1193292005979 homotrimer interaction site [polypeptide binding]; other site 1193292005980 putative active site [active] 1193292005981 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1193292005982 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 1193292005983 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1193292005984 TPR repeat; Region: TPR_11; pfam13414 1193292005985 Tetratricopeptide repeat; Region: TPR_2; pfam07719 1193292005986 MobA/MobL family; Region: MobA_MobL; pfam03389 1193292005987 hypothetical protein; Provisional; Region: PRK10557 1193292005988 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 1193292005989 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1193292005990 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 1193292005991 ATP binding site [chemical binding]; other site 1193292005992 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1193292005993 DNA methylase; Region: N6_N4_Mtase; pfam01555 1193292005994 DNA methylase; Region: N6_N4_Mtase; cl17433 1193292005995 integrase; Provisional; Region: PRK09692 1193292005996 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1193292005997 active site 1193292005998 Int/Topo IB signature motif; other site 1193292005999 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 1193292006000 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1193292006001 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1193292006002 trimer interface [polypeptide binding]; other site 1193292006003 eyelet of channel; other site 1193292006004 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1193292006005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292006006 Zn2+ binding site [ion binding]; other site 1193292006007 Mg2+ binding site [ion binding]; other site 1193292006008 DNA cytosine methylase; Provisional; Region: PRK10458 1193292006009 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1193292006010 cofactor binding site; other site 1193292006011 DNA binding site [nucleotide binding] 1193292006012 substrate interaction site [chemical binding]; other site 1193292006013 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1193292006014 additional DNA contacts [nucleotide binding]; other site 1193292006015 mismatch recognition site; other site 1193292006016 active site 1193292006017 zinc binding site [ion binding]; other site 1193292006018 DNA intercalation site [nucleotide binding]; other site 1193292006019 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1193292006020 EamA-like transporter family; Region: EamA; pfam00892 1193292006021 hypothetical protein; Provisional; Region: PRK10062 1193292006022 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 1193292006023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292006024 metal binding site [ion binding]; metal-binding site 1193292006025 active site 1193292006026 I-site; other site 1193292006027 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 1193292006028 hypothetical protein; Provisional; Region: PRK10708 1193292006029 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 1193292006030 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 1193292006031 DNA binding residues [nucleotide binding] 1193292006032 dimerization interface [polypeptide binding]; other site 1193292006033 lipoprotein; Provisional; Region: PRK10397 1193292006034 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1193292006035 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 1193292006036 active site 1193292006037 Na/Ca binding site [ion binding]; other site 1193292006038 catalytic site [active] 1193292006039 cystine transporter subunit; Provisional; Region: PRK11260 1193292006040 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 1193292006041 substrate binding pocket [chemical binding]; other site 1193292006042 membrane-bound complex binding site; other site 1193292006043 hinge residues; other site 1193292006044 D-cysteine desulfhydrase; Validated; Region: PRK03910 1193292006045 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1193292006046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292006047 catalytic residue [active] 1193292006048 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292006049 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 1193292006050 dimer interface [polypeptide binding]; other site 1193292006051 conserved gate region; other site 1193292006052 putative PBP binding loops; other site 1193292006053 ABC-ATPase subunit interface; other site 1193292006054 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1193292006055 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292006056 Walker A/P-loop; other site 1193292006057 ATP binding site [chemical binding]; other site 1193292006058 Q-loop/lid; other site 1193292006059 ABC transporter signature motif; other site 1193292006060 Walker B; other site 1193292006061 D-loop; other site 1193292006062 H-loop/switch region; other site 1193292006063 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1193292006064 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1193292006065 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 1193292006066 DNA binding residues [nucleotide binding] 1193292006067 dimerization interface [polypeptide binding]; other site 1193292006068 hypothetical protein; Provisional; Region: PRK10613 1193292006069 response regulator; Provisional; Region: PRK09483 1193292006070 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 1193292006071 active site 1193292006072 phosphorylation site [posttranslational modification] 1193292006073 intermolecular recognition site; other site 1193292006074 dimerization interface [polypeptide binding]; other site 1193292006075 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 1193292006076 DNA binding residues [nucleotide binding] 1193292006077 dimerization interface [polypeptide binding]; other site 1193292006078 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1193292006079 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1193292006080 GIY-YIG motif/motif A; other site 1193292006081 active site 1193292006082 catalytic site [active] 1193292006083 putative DNA binding site [nucleotide binding]; other site 1193292006084 metal binding site [ion binding]; metal-binding site 1193292006085 UvrB/uvrC motif; Region: UVR; pfam02151 1193292006086 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1193292006087 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 1193292006088 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1193292006089 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1193292006090 inhibitor site; inhibition site 1193292006091 active site 1193292006092 dimer interface [polypeptide binding]; other site 1193292006093 catalytic residue [active] 1193292006094 hypothetical protein; Provisional; Region: PRK10396 1193292006095 yecA family protein; Region: ygfB_yecA; TIGR02292 1193292006096 SEC-C motif; Region: SEC-C; pfam02810 1193292006097 tyrosine transporter TyrP; Provisional; Region: PRK15132 1193292006098 aromatic amino acid transport protein; Region: araaP; TIGR00837 1193292006099 probable metal-binding protein; Region: matur_matur; TIGR03853 1193292006100 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1193292006101 Ferritin-like domain; Region: Ferritin; pfam00210 1193292006102 ferroxidase diiron center [ion binding]; other site 1193292006103 hypothetical protein; Provisional; Region: PRK09273 1193292006104 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1193292006105 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1193292006106 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 1193292006107 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292006108 putative substrate translocation pore; other site 1193292006109 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 1193292006110 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1193292006111 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1193292006112 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1193292006113 Ferritin-like domain; Region: Ferritin; pfam00210 1193292006114 ferroxidase diiron center [ion binding]; other site 1193292006115 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1193292006116 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 1193292006117 ligand binding site [chemical binding]; other site 1193292006118 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1193292006119 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292006120 Walker A/P-loop; other site 1193292006121 ATP binding site [chemical binding]; other site 1193292006122 Q-loop/lid; other site 1193292006123 ABC transporter signature motif; other site 1193292006124 Walker B; other site 1193292006125 D-loop; other site 1193292006126 H-loop/switch region; other site 1193292006127 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292006128 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 1193292006129 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292006130 TM-ABC transporter signature motif; other site 1193292006131 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1193292006132 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 1193292006133 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1193292006134 active site 1193292006135 homotetramer interface [polypeptide binding]; other site 1193292006136 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 1193292006137 Ligand Binding Site [chemical binding]; other site 1193292006138 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1193292006139 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 1193292006140 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 1193292006141 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1193292006142 arginyl-tRNA synthetase; Region: argS; TIGR00456 1193292006143 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1193292006144 active site 1193292006145 HIGH motif; other site 1193292006146 KMSK motif region; other site 1193292006147 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1193292006148 tRNA binding surface [nucleotide binding]; other site 1193292006149 anticodon binding site; other site 1193292006150 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 1193292006151 putative metal binding site [ion binding]; other site 1193292006152 copper homeostasis protein CutC; Provisional; Region: PRK11572 1193292006153 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1193292006154 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 1193292006155 S-adenosylmethionine binding site [chemical binding]; other site 1193292006156 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1193292006157 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 1193292006158 S-adenosylmethionine binding site [chemical binding]; other site 1193292006159 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 1193292006160 hypothetical protein; Provisional; Region: PRK10302 1193292006161 Isochorismatase family; Region: Isochorismatase; pfam00857 1193292006162 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1193292006163 catalytic triad [active] 1193292006164 conserved cis-peptide bond; other site 1193292006165 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1193292006166 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 1193292006167 dimer interface [polypeptide binding]; other site 1193292006168 anticodon binding site; other site 1193292006169 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 1193292006170 homodimer interface [polypeptide binding]; other site 1193292006171 motif 1; other site 1193292006172 active site 1193292006173 motif 2; other site 1193292006174 GAD domain; Region: GAD; pfam02938 1193292006175 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 1193292006176 active site 1193292006177 motif 3; other site 1193292006178 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_7; cd04664 1193292006179 nudix motif; other site 1193292006180 hypothetical protein; Validated; Region: PRK00110 1193292006181 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 1193292006182 active site 1193292006183 putative DNA-binding cleft [nucleotide binding]; other site 1193292006184 dimer interface [polypeptide binding]; other site 1193292006185 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1193292006186 RuvA N terminal domain; Region: RuvA_N; pfam01330 1193292006187 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1193292006188 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1193292006189 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 1193292006190 Walker A motif; other site 1193292006191 ATP binding site [chemical binding]; other site 1193292006192 Walker B motif; other site 1193292006193 arginine finger; other site 1193292006194 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1193292006195 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1193292006196 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 1193292006197 ABC-ATPase subunit interface; other site 1193292006198 dimer interface [polypeptide binding]; other site 1193292006199 putative PBP binding regions; other site 1193292006200 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1193292006201 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1193292006202 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 1193292006203 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1193292006204 metal binding site [ion binding]; metal-binding site 1193292006205 putative peptidase; Provisional; Region: PRK11649 1193292006206 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1193292006207 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292006208 Peptidase family M23; Region: Peptidase_M23; pfam01551 1193292006209 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1193292006210 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1193292006211 putative acyl-acceptor binding pocket; other site 1193292006212 pyruvate kinase; Provisional; Region: PRK05826 1193292006213 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 1193292006214 domain interfaces; other site 1193292006215 active site 1193292006216 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1193292006217 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292006218 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1193292006219 putative active site [active] 1193292006220 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1193292006221 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1193292006222 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1193292006223 phosphogluconate dehydratase; Validated; Region: PRK09054 1193292006224 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1193292006225 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1193292006226 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1193292006227 active site 1193292006228 intersubunit interface [polypeptide binding]; other site 1193292006229 catalytic residue [active] 1193292006230 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1193292006231 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1193292006232 ATP-grasp domain; Region: ATP-grasp; pfam02222 1193292006233 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1193292006234 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1193292006235 putative metal binding site [ion binding]; other site 1193292006236 protease 2; Provisional; Region: PRK10115 1193292006237 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1193292006238 exodeoxyribonuclease X; Provisional; Region: PRK07983 1193292006239 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1193292006240 active site 1193292006241 catalytic site [active] 1193292006242 substrate binding site [chemical binding]; other site 1193292006243 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 1193292006244 CopC domain; Region: CopC; cl01012 1193292006245 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1193292006246 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 1193292006247 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1193292006248 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 1193292006249 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1193292006250 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 1193292006251 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 1193292006252 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1193292006253 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 1193292006254 S-adenosylmethionine binding site [chemical binding]; other site 1193292006255 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1193292006256 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1193292006257 mce related protein; Region: MCE; pfam02470 1193292006258 mce related protein; Region: MCE; pfam02470 1193292006259 mce related protein; Region: MCE; pfam02470 1193292006260 mce related protein; Region: MCE; pfam02470 1193292006261 mce related protein; Region: MCE; pfam02470 1193292006262 mce related protein; Region: MCE; pfam02470 1193292006263 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1193292006264 Paraquat-inducible protein A; Region: PqiA; pfam04403 1193292006265 Paraquat-inducible protein A; Region: PqiA; pfam04403 1193292006266 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1193292006267 GAF domain; Region: GAF_2; pfam13185 1193292006268 ProP expression regulator; Provisional; Region: PRK04950 1193292006269 ProQ/FINO family; Region: ProQ; pfam04352 1193292006270 carboxy-terminal protease; Provisional; Region: PRK11186 1193292006271 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1193292006272 protein binding site [polypeptide binding]; other site 1193292006273 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1193292006274 Catalytic dyad [active] 1193292006275 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1193292006276 heat shock protein HtpX; Provisional; Region: PRK05457 1193292006277 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 1193292006278 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292006279 putative substrate translocation pore; other site 1193292006280 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 1193292006281 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 1193292006282 dimerization interface [polypeptide binding]; other site 1193292006283 putative Zn2+ binding site [ion binding]; other site 1193292006284 putative DNA binding site [nucleotide binding]; other site 1193292006285 Bacterial transcriptional regulator; Region: IclR; pfam01614 1193292006286 YobH-like protein; Region: YobH; pfam13996 1193292006287 PhoPQ regulatory protein; Provisional; Region: PRK10299 1193292006288 YebO-like protein; Region: YebO; pfam13974 1193292006289 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 1193292006290 DNA-binding site [nucleotide binding]; DNA binding site 1193292006291 RNA-binding motif; other site 1193292006292 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1193292006293 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1193292006294 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1193292006295 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1193292006296 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 1193292006297 S-adenosylmethionine binding site [chemical binding]; other site 1193292006298 hypothetical protein; Provisional; Region: PRK11469 1193292006299 Domain of unknown function DUF; Region: DUF204; pfam02659 1193292006300 Domain of unknown function DUF; Region: DUF204; pfam02659 1193292006301 hypothetical protein; Provisional; Region: PRK02913 1193292006302 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1193292006303 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1193292006304 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; cd00006 1193292006305 active pocket/dimerization site; other site 1193292006306 active site 1193292006307 phosphorylation site [posttranslational modification] 1193292006308 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 1193292006309 active site 1193292006310 phosphorylation site [posttranslational modification] 1193292006311 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1193292006312 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1193292006313 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 1193292006314 Transporter associated domain; Region: CorC_HlyC; smart01091 1193292006315 phage resistance protein; Provisional; Region: PRK10551 1193292006316 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1193292006317 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292006318 L-serine deaminase; Provisional; Region: PRK15023 1193292006319 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1193292006320 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1193292006321 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 1193292006322 putative active site [active] 1193292006323 putative CoA binding site [chemical binding]; other site 1193292006324 nudix motif; other site 1193292006325 metal binding site [ion binding]; metal-binding site 1193292006326 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 1193292006327 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1193292006328 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 1193292006329 hypothetical protein; Provisional; Region: PRK05114 1193292006330 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_2; cd06150 1193292006331 homotrimer interaction site [polypeptide binding]; other site 1193292006332 putative active site [active] 1193292006333 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1193292006334 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 1193292006335 DEAD_2; Region: DEAD_2; pfam06733 1193292006336 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1193292006337 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1193292006338 Glycoprotease family; Region: Peptidase_M22; pfam00814 1193292006339 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 1193292006340 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1193292006341 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1193292006342 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1193292006343 acyl-activating enzyme (AAE) consensus motif; other site 1193292006344 putative AMP binding site [chemical binding]; other site 1193292006345 putative active site [active] 1193292006346 putative CoA binding site [chemical binding]; other site 1193292006347 ribonuclease D; Provisional; Region: PRK10829 1193292006348 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1193292006349 catalytic site [active] 1193292006350 putative active site [active] 1193292006351 putative substrate binding site [chemical binding]; other site 1193292006352 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1193292006353 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1193292006354 cell division inhibitor MinD; Provisional; Region: PRK10818 1193292006355 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1193292006356 Switch I; other site 1193292006357 Switch II; other site 1193292006358 septum formation inhibitor; Reviewed; Region: minC; PRK03511 1193292006359 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1193292006360 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1193292006361 YcgL domain; Region: YcgL; cl01189 1193292006362 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 1193292006363 hypothetical protein; Provisional; Region: PRK10691 1193292006364 hypothetical protein; Provisional; Region: PRK05170 1193292006365 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1193292006366 disulfide bond formation protein B; Provisional; Region: PRK01749 1193292006367 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1193292006368 transmembrane helices; other site 1193292006369 fatty acid metabolism regulator; Provisional; Region: PRK04984 1193292006370 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292006371 DNA-binding site [nucleotide binding]; DNA binding site 1193292006372 FadR C-terminal domain; Region: FadR_C; pfam07840 1193292006373 SpoVR family protein; Provisional; Region: PRK11767 1193292006374 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1193292006375 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1193292006376 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1193292006377 alanine racemase; Reviewed; Region: dadX; PRK03646 1193292006378 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1193292006379 active site 1193292006380 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1193292006381 substrate binding site [chemical binding]; other site 1193292006382 catalytic residues [active] 1193292006383 dimer interface [polypeptide binding]; other site 1193292006384 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 1193292006385 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1193292006386 TrkA-C domain; Region: TrkA_C; pfam02080 1193292006387 Transporter associated domain; Region: CorC_HlyC; smart01091 1193292006388 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1193292006389 dimer interface [polypeptide binding]; other site 1193292006390 catalytic triad [active] 1193292006391 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 1193292006392 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 1193292006393 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1193292006394 catalytic residue [active] 1193292006395 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1193292006396 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292006397 N-terminal plug; other site 1193292006398 ligand-binding site [chemical binding]; other site 1193292006399 trehalase; Provisional; Region: treA; PRK13271 1193292006400 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1193292006401 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1193292006402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1193292006403 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1193292006404 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1193292006405 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1193292006406 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1193292006407 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1193292006408 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 1193292006409 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1193292006410 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 1193292006411 putative di-iron ligands [ion binding]; other site 1193292006412 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1193292006413 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1193292006414 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 1193292006415 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292006416 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 1193292006417 dimerization interface [polypeptide binding]; other site 1193292006418 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1193292006419 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1193292006420 tetramer interface [polypeptide binding]; other site 1193292006421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292006422 catalytic residue [active] 1193292006423 threonine/serine transporter TdcC; Provisional; Region: PRK13629 1193292006424 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1193292006425 propionate/acetate kinase; Provisional; Region: PRK12379 1193292006426 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1193292006427 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1193292006428 Pyruvate formate lyase 1; Region: PFL1; cd01678 1193292006429 coenzyme A binding site [chemical binding]; other site 1193292006430 active site 1193292006431 catalytic residues [active] 1193292006432 glycine loop; other site 1193292006433 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1193292006434 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1193292006435 dimerization interface [polypeptide binding]; other site 1193292006436 ligand binding site [chemical binding]; other site 1193292006437 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292006438 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1193292006439 TM-ABC transporter signature motif; other site 1193292006440 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1193292006441 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1193292006442 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1193292006443 TM-ABC transporter signature motif; other site 1193292006444 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1193292006445 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1193292006446 Walker A/P-loop; other site 1193292006447 ATP binding site [chemical binding]; other site 1193292006448 Q-loop/lid; other site 1193292006449 ABC transporter signature motif; other site 1193292006450 Walker B; other site 1193292006451 D-loop; other site 1193292006452 H-loop/switch region; other site 1193292006453 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1193292006454 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1193292006455 Walker A/P-loop; other site 1193292006456 ATP binding site [chemical binding]; other site 1193292006457 Q-loop/lid; other site 1193292006458 ABC transporter signature motif; other site 1193292006459 Walker B; other site 1193292006460 D-loop; other site 1193292006461 H-loop/switch region; other site 1193292006462 cell density-dependent motility repressor; Provisional; Region: PRK10082 1193292006463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292006464 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 1193292006465 dimerization interface [polypeptide binding]; other site 1193292006466 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1193292006467 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1193292006468 active site 1193292006469 substrate-binding site [chemical binding]; other site 1193292006470 metal-binding site [ion binding] 1193292006471 ATP binding site [chemical binding]; other site 1193292006472 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292006473 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292006474 Coenzyme A binding pocket [chemical binding]; other site 1193292006475 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1193292006476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292006477 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 1193292006478 dimerization interface [polypeptide binding]; other site 1193292006479 citrate-proton symporter; Provisional; Region: PRK15075 1193292006480 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 1193292006481 putative substrate translocation pore; other site 1193292006482 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1193292006483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292006484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292006485 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1193292006486 putative dimerization interface [polypeptide binding]; other site 1193292006487 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 1193292006488 DNA-binding site [nucleotide binding]; DNA binding site 1193292006489 RNA-binding motif; other site 1193292006490 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1193292006491 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1193292006492 active site 1193292006493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 1193292006494 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1193292006495 putative active site pocket [active] 1193292006496 dimerization interface [polypeptide binding]; other site 1193292006497 putative catalytic residue [active] 1193292006498 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1193292006499 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1193292006500 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1193292006501 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1193292006502 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1193292006503 ligand binding site [chemical binding]; other site 1193292006504 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1193292006505 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1193292006506 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1193292006507 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1193292006508 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1193292006509 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1193292006510 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1193292006511 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1193292006512 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1193292006513 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1193292006514 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1193292006515 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1193292006516 PAAR motif; Region: PAAR_motif; pfam05488 1193292006517 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1193292006518 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1193292006519 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1193292006520 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1193292006521 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1193292006522 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1193292006523 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1193292006524 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1193292006525 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1193292006526 ImpA domain protein; Region: DUF3702; pfam12486 1193292006527 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1193292006528 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1193292006529 putative ligand binding site [chemical binding]; other site 1193292006530 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 1193292006531 GTP-binding protein YchF; Reviewed; Region: PRK09601 1193292006532 YchF GTPase; Region: YchF; cd01900 1193292006533 G1 box; other site 1193292006534 GTP/Mg2+ binding site [chemical binding]; other site 1193292006535 Switch I region; other site 1193292006536 G2 box; other site 1193292006537 Switch II region; other site 1193292006538 G3 box; other site 1193292006539 G4 box; other site 1193292006540 G5 box; other site 1193292006541 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 1193292006542 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 1193292006543 putative active site [active] 1193292006544 catalytic residue [active] 1193292006545 hypothetical protein; Provisional; Region: PRK10692 1193292006546 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 1193292006547 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1193292006548 DNA binding residues [nucleotide binding] 1193292006549 putative dimer interface [polypeptide binding]; other site 1193292006550 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1193292006551 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1193292006552 putative transporter; Provisional; Region: PRK11660 1193292006553 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1193292006554 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1193292006555 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1193292006556 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1193292006557 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1193292006558 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1193292006559 active site 1193292006560 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1193292006561 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1193292006562 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1193292006563 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1193292006564 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1193292006565 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1193292006566 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1193292006567 tRNA; other site 1193292006568 putative tRNA binding site [nucleotide binding]; other site 1193292006569 putative NADP binding site [chemical binding]; other site 1193292006570 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1193292006571 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1193292006572 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1193292006573 RF-1 domain; Region: RF-1; pfam00472 1193292006574 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1193292006575 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 1193292006576 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 1193292006577 hypothetical protein; Provisional; Region: PRK10941 1193292006578 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1193292006579 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1193292006580 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1193292006581 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 1193292006582 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1193292006583 cation transport regulator; Reviewed; Region: chaB; PRK09582 1193292006584 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1193292006585 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1193292006586 putative active site pocket [active] 1193292006587 dimerization interface [polypeptide binding]; other site 1193292006588 putative catalytic residue [active] 1193292006589 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1193292006590 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1193292006591 Nitrate and nitrite sensing; Region: NIT; pfam08376 1193292006592 ANTAR domain; Region: ANTAR; pfam03861 1193292006593 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1193292006594 NMT1-like family; Region: NMT1_2; pfam13379 1193292006595 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1193292006596 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 1193292006597 dimer interface [polypeptide binding]; other site 1193292006598 conserved gate region; other site 1193292006599 putative PBP binding loops; other site 1193292006600 ABC-ATPase subunit interface; other site 1193292006601 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1193292006602 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1193292006603 Walker A/P-loop; other site 1193292006604 ATP binding site [chemical binding]; other site 1193292006605 Q-loop/lid; other site 1193292006606 ABC transporter signature motif; other site 1193292006607 Walker B; other site 1193292006608 D-loop; other site 1193292006609 H-loop/switch region; other site 1193292006610 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1193292006611 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292006612 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1193292006613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292006614 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1193292006615 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1193292006616 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1193292006617 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1193292006618 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1193292006619 [4Fe-4S] binding site [ion binding]; other site 1193292006620 molybdopterin cofactor binding site; other site 1193292006621 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1193292006622 molybdopterin cofactor binding site; other site 1193292006623 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1193292006624 putative invasin; Provisional; Region: PRK10177 1193292006625 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1193292006626 transcriptional regulator NarL; Provisional; Region: PRK10651 1193292006627 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 1193292006628 active site 1193292006629 phosphorylation site [posttranslational modification] 1193292006630 intermolecular recognition site; other site 1193292006631 dimerization interface [polypeptide binding]; other site 1193292006632 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 1193292006633 DNA binding residues [nucleotide binding] 1193292006634 dimerization interface [polypeptide binding]; other site 1193292006635 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 1193292006636 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1193292006637 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 1193292006638 dimerization interface [polypeptide binding]; other site 1193292006639 Histidine kinase; Region: HisKA_3; pfam07730 1193292006640 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 1193292006641 ATP binding site [chemical binding]; other site 1193292006642 Mg2+ binding site [ion binding]; other site 1193292006643 G-X-G motif; other site 1193292006644 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1193292006645 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1193292006646 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1193292006647 [4Fe-4S] binding site [ion binding]; other site 1193292006648 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292006649 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292006650 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292006651 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1193292006652 molybdopterin cofactor binding site; other site 1193292006653 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1193292006654 4Fe-4S binding domain; Region: Fer4; cl02805 1193292006655 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1193292006656 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 1193292006657 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1193292006658 EamA-like transporter family; Region: EamA; pfam00892 1193292006659 EamA-like transporter family; Region: EamA; pfam00892 1193292006660 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1193292006661 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1193292006662 AsnC family; Region: AsnC_trans_reg; pfam01037 1193292006663 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1193292006664 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1193292006665 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1193292006666 putative active site [active] 1193292006667 putative substrate binding site [chemical binding]; other site 1193292006668 putative cosubstrate binding site; other site 1193292006669 catalytic site [active] 1193292006670 hypothetical protein; Provisional; Region: PRK10279 1193292006671 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1193292006672 nucleophile elbow; other site 1193292006673 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 1193292006674 active site 1193292006675 response regulator of RpoS; Provisional; Region: PRK10693 1193292006676 phosphorylation site [posttranslational modification] 1193292006677 intermolecular recognition site; other site 1193292006678 dimerization interface [polypeptide binding]; other site 1193292006679 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1193292006680 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1193292006681 active site 1193292006682 tetramer interface; other site 1193292006683 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 1193292006684 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1193292006685 thymidine kinase; Provisional; Region: PRK04296 1193292006686 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1193292006687 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1193292006688 putative catalytic cysteine [active] 1193292006689 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1193292006690 putative active site [active] 1193292006691 metal binding site [ion binding]; metal-binding site 1193292006692 hypothetical protein; Provisional; Region: PRK11111 1193292006693 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1193292006694 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1193292006695 peptide binding site [polypeptide binding]; other site 1193292006696 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1193292006697 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 1193292006698 dimer interface [polypeptide binding]; other site 1193292006699 conserved gate region; other site 1193292006700 putative PBP binding loops; other site 1193292006701 ABC-ATPase subunit interface; other site 1193292006702 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1193292006703 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1193292006704 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 1193292006705 dimer interface [polypeptide binding]; other site 1193292006706 conserved gate region; other site 1193292006707 ABC-ATPase subunit interface; other site 1193292006708 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1193292006709 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292006710 Walker A/P-loop; other site 1193292006711 ATP binding site [chemical binding]; other site 1193292006712 Q-loop/lid; other site 1193292006713 ABC transporter signature motif; other site 1193292006714 Walker B; other site 1193292006715 D-loop; other site 1193292006716 H-loop/switch region; other site 1193292006717 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1193292006718 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1193292006719 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292006720 Walker A/P-loop; other site 1193292006721 ATP binding site [chemical binding]; other site 1193292006722 Q-loop/lid; other site 1193292006723 ABC transporter signature motif; other site 1193292006724 Walker B; other site 1193292006725 D-loop; other site 1193292006726 H-loop/switch region; other site 1193292006727 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1193292006728 Ion transport protein; Region: Ion_trans; pfam00520 1193292006729 Ion channel; Region: Ion_trans_2; pfam07885 1193292006730 dsDNA-mimic protein; Reviewed; Region: PRK05094 1193292006731 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1193292006732 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1193292006733 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 1193292006734 putative active site [active] 1193292006735 catalytic site [active] 1193292006736 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 1193292006737 putative active site [active] 1193292006738 catalytic site [active] 1193292006739 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1193292006740 YciI-like protein; Reviewed; Region: PRK11370 1193292006741 transport protein TonB; Provisional; Region: PRK10819 1193292006742 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1193292006743 Phosphotransferase enzyme family; Region: APH; pfam01636 1193292006744 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1193292006745 active site 1193292006746 ATP binding site [chemical binding]; other site 1193292006747 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 1193292006748 active site 1193292006749 ATP binding site [chemical binding]; other site 1193292006750 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 1193292006751 6-phosphofructokinase 2; Provisional; Region: PRK10294 1193292006752 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 1193292006753 putative substrate binding site [chemical binding]; other site 1193292006754 putative ATP binding site [chemical binding]; other site 1193292006755 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 1193292006756 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1193292006757 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1193292006758 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1193292006759 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1193292006760 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 1193292006761 active site 1193292006762 dimer interface [polypeptide binding]; other site 1193292006763 motif 1; other site 1193292006764 motif 2; other site 1193292006765 motif 3; other site 1193292006766 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 1193292006767 anticodon binding site; other site 1193292006768 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1193292006769 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1193292006770 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1193292006771 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1193292006772 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1193292006773 23S rRNA binding site [nucleotide binding]; other site 1193292006774 L21 binding site [polypeptide binding]; other site 1193292006775 L13 binding site [polypeptide binding]; other site 1193292006776 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1193292006777 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1193292006778 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 1193292006779 dimer interface [polypeptide binding]; other site 1193292006780 motif 1; other site 1193292006781 active site 1193292006782 motif 2; other site 1193292006783 motif 3; other site 1193292006784 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1193292006785 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 1193292006786 putative tRNA-binding site [nucleotide binding]; other site 1193292006787 B3/4 domain; Region: B3_4; pfam03483 1193292006788 tRNA synthetase B5 domain; Region: B5; smart00874 1193292006789 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 1193292006790 dimer interface [polypeptide binding]; other site 1193292006791 motif 1; other site 1193292006792 motif 3; other site 1193292006793 motif 2; other site 1193292006794 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1193292006795 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1193292006796 IHF dimer interface [polypeptide binding]; other site 1193292006797 IHF - DNA interface [nucleotide binding]; other site 1193292006798 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_2; cd06150 1193292006799 homotrimer interaction site [polypeptide binding]; other site 1193292006800 putative active site [active] 1193292006801 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1193292006802 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292006803 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292006804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292006805 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 1193292006806 dimerization interface [polypeptide binding]; other site 1193292006807 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15356 1193292006808 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292006809 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 1193292006810 ABC-ATPase subunit interface; other site 1193292006811 dimer interface [polypeptide binding]; other site 1193292006812 putative PBP binding regions; other site 1193292006813 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1193292006814 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1193292006815 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 1193292006816 catalytic residues [active] 1193292006817 dimer interface [polypeptide binding]; other site 1193292006818 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 1193292006819 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1193292006820 Walker A/P-loop; other site 1193292006821 ATP binding site [chemical binding]; other site 1193292006822 Q-loop/lid; other site 1193292006823 ABC transporter signature motif; other site 1193292006824 Walker B; other site 1193292006825 D-loop; other site 1193292006826 H-loop/switch region; other site 1193292006827 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 1193292006828 NlpC/P60 family; Region: NLPC_P60; pfam00877 1193292006829 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1193292006830 hypothetical protein; Validated; Region: PRK00029 1193292006831 hypothetical protein; Provisional; Region: PRK10183 1193292006832 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 1193292006833 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1193292006834 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1193292006835 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1193292006836 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1193292006837 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1193292006838 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1193292006839 putative inner membrane protein; Provisional; Region: PRK10983 1193292006840 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1193292006841 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1193292006842 FAD binding domain; Region: FAD_binding_4; pfam01565 1193292006843 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1193292006844 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 1193292006845 CoenzymeA binding site [chemical binding]; other site 1193292006846 subunit interaction site [polypeptide binding]; other site 1193292006847 PHB binding site; other site 1193292006848 hypothetical protein; Provisional; Region: PRK10457 1193292006849 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1193292006850 methionine synthase; Provisional; Region: PRK01207 1193292006851 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1193292006852 substrate binding site [chemical binding]; other site 1193292006853 THF binding site; other site 1193292006854 zinc-binding site [ion binding]; other site 1193292006855 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 1193292006856 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1193292006857 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1193292006858 Walker A/P-loop; other site 1193292006859 ATP binding site [chemical binding]; other site 1193292006860 Q-loop/lid; other site 1193292006861 ABC transporter signature motif; other site 1193292006862 Walker B; other site 1193292006863 D-loop; other site 1193292006864 H-loop/switch region; other site 1193292006865 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292006866 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 1193292006867 ABC-ATPase subunit interface; other site 1193292006868 dimer interface [polypeptide binding]; other site 1193292006869 putative PBP binding regions; other site 1193292006870 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 1193292006871 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1193292006872 intersubunit interface [polypeptide binding]; other site 1193292006873 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292006874 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292006875 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 1193292006876 dimerization interface [polypeptide binding]; other site 1193292006877 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1193292006878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292006879 NAD(P) binding site [chemical binding]; other site 1193292006880 active site 1193292006881 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292006882 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292006883 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1193292006884 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292006885 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1193292006886 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1193292006887 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 1193292006888 phosphate binding site [ion binding]; other site 1193292006889 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292006890 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292006891 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1193292006892 DoxX; Region: DoxX; pfam07681 1193292006893 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 1193292006894 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1193292006895 putative ABC transporter; Region: ycf24; CHL00085 1193292006896 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 1193292006897 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1193292006898 Walker A/P-loop; other site 1193292006899 ATP binding site [chemical binding]; other site 1193292006900 Q-loop/lid; other site 1193292006901 ABC transporter signature motif; other site 1193292006902 Walker B; other site 1193292006903 D-loop; other site 1193292006904 H-loop/switch region; other site 1193292006905 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 1193292006906 FeS assembly protein SufD; Region: sufD; TIGR01981 1193292006907 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1193292006908 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 1193292006909 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292006910 catalytic residue [active] 1193292006911 cysteine desufuration protein SufE; Provisional; Region: PRK09296 1193292006912 L,D-transpeptidase; Provisional; Region: PRK10260 1193292006913 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292006914 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1193292006915 murein lipoprotein; Provisional; Region: PRK15396 1193292006916 pyruvate kinase; Provisional; Region: PRK09206 1193292006917 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; cd00288 1193292006918 domain interfaces; other site 1193292006919 active site 1193292006920 Protein of unknown function (DUF2767); Region: DUF2767; pfam10965 1193292006921 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 1193292006922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292006923 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1193292006924 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1193292006925 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1193292006926 active site 1193292006927 Fe binding site [ion binding]; other site 1193292006928 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 1193292006929 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292006930 putative substrate translocation pore; other site 1193292006931 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1193292006932 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1193292006933 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1193292006934 shikimate binding site; other site 1193292006935 NAD(P) binding site [chemical binding]; other site 1193292006936 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1193292006937 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1193292006938 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1193292006939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292006940 Walker A/P-loop; other site 1193292006941 ATP binding site [chemical binding]; other site 1193292006942 Q-loop/lid; other site 1193292006943 ABC transporter signature motif; other site 1193292006944 Walker B; other site 1193292006945 D-loop; other site 1193292006946 H-loop/switch region; other site 1193292006947 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1193292006948 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 1193292006949 ABC-ATPase subunit interface; other site 1193292006950 dimer interface [polypeptide binding]; other site 1193292006951 putative PBP binding regions; other site 1193292006952 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1193292006953 putative ligand binding residues [chemical binding]; other site 1193292006954 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1193292006955 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 1193292006956 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1193292006957 Bacterial transcriptional regulator; Region: IclR; pfam01614 1193292006958 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 1193292006959 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1193292006960 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 1193292006961 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1193292006962 putative active site [active] 1193292006963 Fe(II) binding site [ion binding]; other site 1193292006964 putative dimer interface [polypeptide binding]; other site 1193292006965 putative tetramer interface [polypeptide binding]; other site 1193292006966 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1193292006967 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1193292006968 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1193292006969 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 1193292006970 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1193292006971 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1193292006972 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1193292006973 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1193292006974 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1193292006975 active site 1193292006976 catalytic residues [active] 1193292006977 metal binding site [ion binding]; metal-binding site 1193292006978 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1193292006979 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 1193292006980 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1193292006981 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 1193292006982 active site residue [active] 1193292006983 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 1193292006984 active site residue [active] 1193292006985 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1193292006986 active site residue [active] 1193292006987 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 1193292006988 active site residue [active] 1193292006989 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1193292006990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292006991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292006992 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 1193292006993 dimerization interface [polypeptide binding]; other site 1193292006994 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1193292006995 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1193292006996 dimer interface [polypeptide binding]; other site 1193292006997 active site 1193292006998 non-prolyl cis peptide bond; other site 1193292006999 insertion regions; other site 1193292007000 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1193292007001 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1193292007002 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1193292007003 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 1193292007004 membrane-bound complex binding site; other site 1193292007005 hinge residues; other site 1193292007006 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1193292007007 NMT1/THI5 like; Region: NMT1; pfam09084 1193292007008 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1193292007009 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 1193292007010 dimer interface [polypeptide binding]; other site 1193292007011 conserved gate region; other site 1193292007012 putative PBP binding loops; other site 1193292007013 ABC-ATPase subunit interface; other site 1193292007014 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1193292007015 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1193292007016 Walker A/P-loop; other site 1193292007017 ATP binding site [chemical binding]; other site 1193292007018 Q-loop/lid; other site 1193292007019 ABC transporter signature motif; other site 1193292007020 Walker B; other site 1193292007021 D-loop; other site 1193292007022 H-loop/switch region; other site 1193292007023 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1193292007024 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292007025 N-terminal plug; other site 1193292007026 ligand-binding site [chemical binding]; other site 1193292007027 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1193292007028 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1193292007029 Walker A/P-loop; other site 1193292007030 ATP binding site [chemical binding]; other site 1193292007031 Q-loop/lid; other site 1193292007032 ABC transporter signature motif; other site 1193292007033 Walker B; other site 1193292007034 D-loop; other site 1193292007035 H-loop/switch region; other site 1193292007036 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292007037 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 1193292007038 ABC-ATPase subunit interface; other site 1193292007039 dimer interface [polypeptide binding]; other site 1193292007040 putative PBP binding regions; other site 1193292007041 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292007042 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 1193292007043 ABC-ATPase subunit interface; other site 1193292007044 dimer interface [polypeptide binding]; other site 1193292007045 putative PBP binding regions; other site 1193292007046 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1193292007047 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 1193292007048 siderophore binding site; other site 1193292007049 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1193292007050 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292007051 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; cd04795 1193292007052 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 1193292007053 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292007054 substrate binding pocket [chemical binding]; other site 1193292007055 membrane-bound complex binding site; other site 1193292007056 hinge residues; other site 1193292007057 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292007058 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 1193292007059 dimer interface [polypeptide binding]; other site 1193292007060 conserved gate region; other site 1193292007061 putative PBP binding loops; other site 1193292007062 ABC-ATPase subunit interface; other site 1193292007063 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292007064 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292007065 Walker A/P-loop; other site 1193292007066 ATP binding site [chemical binding]; other site 1193292007067 Q-loop/lid; other site 1193292007068 ABC transporter signature motif; other site 1193292007069 Walker B; other site 1193292007070 D-loop; other site 1193292007071 H-loop/switch region; other site 1193292007072 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 1193292007073 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1193292007074 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292007075 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 1193292007076 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 1193292007077 putative substrate translocation pore; other site 1193292007078 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1193292007079 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292007080 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1193292007081 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1193292007082 metal binding site [ion binding]; metal-binding site 1193292007083 putative dimer interface [polypeptide binding]; other site 1193292007084 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1193292007085 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1193292007086 [4Fe-4S] binding site [ion binding]; other site 1193292007087 molybdopterin cofactor binding site; other site 1193292007088 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 1193292007089 molybdopterin cofactor binding site; other site 1193292007090 putative dehydrogenase; Provisional; Region: PRK10098 1193292007091 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1193292007092 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1193292007093 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1193292007094 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 1193292007095 dimer interface [polypeptide binding]; other site 1193292007096 conserved gate region; other site 1193292007097 ABC-ATPase subunit interface; other site 1193292007098 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 1193292007099 dimer interface [polypeptide binding]; other site 1193292007100 conserved gate region; other site 1193292007101 putative PBP binding loops; other site 1193292007102 ABC-ATPase subunit interface; other site 1193292007103 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1193292007104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292007105 Walker A/P-loop; other site 1193292007106 ATP binding site [chemical binding]; other site 1193292007107 Q-loop/lid; other site 1193292007108 ABC transporter signature motif; other site 1193292007109 Walker B; other site 1193292007110 D-loop; other site 1193292007111 H-loop/switch region; other site 1193292007112 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1193292007113 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 1193292007114 CRISPR-associated protein Cse1 (CRISPR_cse1); Region: CRISPR_Cse1; pfam09481 1193292007115 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 1193292007116 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 1193292007117 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 1193292007118 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cl17348 1193292007119 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1193292007120 CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI; Region: cas1_ECOLI; TIGR03638 1193292007121 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 1193292007122 hypothetical protein; Region: PHA02053 1193292007123 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1193292007124 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292007125 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1193292007126 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1193292007127 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1193292007128 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1193292007129 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1193292007130 hypothetical protein; Provisional; Region: PRK09784 1193292007131 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1193292007132 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1193292007133 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1193292007134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292007135 Walker A/P-loop; other site 1193292007136 ATP binding site [chemical binding]; other site 1193292007137 Q-loop/lid; other site 1193292007138 ABC transporter signature motif; other site 1193292007139 Walker B; other site 1193292007140 D-loop; other site 1193292007141 H-loop/switch region; other site 1193292007142 heme exporter protein CcmB; Region: ccmB; TIGR01190 1193292007143 heme exporter protein CcmC; Region: ccmC; TIGR01191 1193292007144 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1193292007145 CcmE; Region: CcmE; cl00994 1193292007146 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1193292007147 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1193292007148 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1193292007149 catalytic residues [active] 1193292007150 central insert; other site 1193292007151 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1193292007152 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1193292007153 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1193292007154 AAA domain; Region: AAA_31; pfam13614 1193292007155 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 1193292007156 P-loop; other site 1193292007157 Magnesium ion binding site [ion binding]; other site 1193292007158 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 1193292007159 Magnesium ion binding site [ion binding]; other site 1193292007160 Transposase; Region: HTH_Tnp_1; pfam01527 1193292007161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1193292007162 Integrase core domain; Region: rve; pfam00665 1193292007163 Integrase core domain; Region: rve_3; pfam13683 1193292007164 acetoin reductase; Validated; Region: PRK08643 1193292007165 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1193292007166 NAD binding site [chemical binding]; other site 1193292007167 homotetramer interface [polypeptide binding]; other site 1193292007168 homodimer interface [polypeptide binding]; other site 1193292007169 active site 1193292007170 substrate binding site [chemical binding]; other site 1193292007171 acetolactate synthase; Reviewed; Region: PRK08617 1193292007172 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1193292007173 PYR/PP interface [polypeptide binding]; other site 1193292007174 dimer interface [polypeptide binding]; other site 1193292007175 TPP binding site [chemical binding]; other site 1193292007176 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1193292007177 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1193292007178 TPP-binding site [chemical binding]; other site 1193292007179 dimer interface [polypeptide binding]; other site 1193292007180 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1193292007181 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1193292007182 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007183 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 1193292007184 putative dimerization interface [polypeptide binding]; other site 1193292007185 putative substrate binding pocket [chemical binding]; other site 1193292007186 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1193292007187 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1193292007188 NAD binding site [chemical binding]; other site 1193292007189 homotetramer interface [polypeptide binding]; other site 1193292007190 homodimer interface [polypeptide binding]; other site 1193292007191 substrate binding site [chemical binding]; other site 1193292007192 active site 1193292007193 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1193292007194 3-hydroxybutyryl-CoA dehydrogenase; Region: PLN02545 1193292007195 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1193292007196 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1193292007197 putative acyltransferase; Provisional; Region: PRK05790 1193292007198 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1193292007199 dimer interface [polypeptide binding]; other site 1193292007200 active site 1193292007201 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1193292007202 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1193292007203 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292007204 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007205 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1193292007206 putative dimerization interface [polypeptide binding]; other site 1193292007207 Protein of unknown function (DUF535); Region: DUF535; cl01128 1193292007208 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1193292007209 FAD binding domain; Region: FAD_binding_4; pfam01565 1193292007210 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1193292007211 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 1193292007212 dimer interface [polypeptide binding]; other site 1193292007213 conserved gate region; other site 1193292007214 putative PBP binding loops; other site 1193292007215 ABC-ATPase subunit interface; other site 1193292007216 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1193292007217 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1193292007218 Walker A/P-loop; other site 1193292007219 ATP binding site [chemical binding]; other site 1193292007220 Q-loop/lid; other site 1193292007221 ABC transporter signature motif; other site 1193292007222 Walker B; other site 1193292007223 D-loop; other site 1193292007224 H-loop/switch region; other site 1193292007225 NMT1/THI5 like; Region: NMT1; pfam09084 1193292007226 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1193292007227 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1193292007228 homotrimer interaction site [polypeptide binding]; other site 1193292007229 putative active site [active] 1193292007230 cytosine deaminase-like protein; Validated; Region: PRK07583 1193292007231 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1193292007232 active site 1193292007233 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1193292007234 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1193292007235 FMN-binding pocket [chemical binding]; other site 1193292007236 flavin binding motif; other site 1193292007237 phosphate binding motif [ion binding]; other site 1193292007238 beta-alpha-beta structure motif; other site 1193292007239 NAD binding pocket [chemical binding]; other site 1193292007240 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292007241 catalytic loop [active] 1193292007242 iron binding site [ion binding]; other site 1193292007243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292007245 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 1193292007246 dimerization interface [polypeptide binding]; other site 1193292007247 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1193292007248 amidohydrolase; Provisional; Region: PRK12393 1193292007249 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1193292007250 active site 1193292007251 putative substrate binding pocket [chemical binding]; other site 1193292007252 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1193292007253 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1193292007254 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1193292007255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292007256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007257 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 1193292007258 putative effector binding pocket; other site 1193292007259 putative dimerization interface [polypeptide binding]; other site 1193292007260 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 1193292007261 putative substrate translocation pore; other site 1193292007262 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1193292007263 DinB family; Region: DinB; cl17821 1193292007264 DinB superfamily; Region: DinB_2; pfam12867 1193292007265 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1193292007266 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1193292007267 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292007268 Walker A/P-loop; other site 1193292007269 ATP binding site [chemical binding]; other site 1193292007270 Q-loop/lid; other site 1193292007271 ABC transporter signature motif; other site 1193292007272 Walker B; other site 1193292007273 D-loop; other site 1193292007274 H-loop/switch region; other site 1193292007275 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1193292007276 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1193292007277 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292007278 Walker A/P-loop; other site 1193292007279 ATP binding site [chemical binding]; other site 1193292007280 Q-loop/lid; other site 1193292007281 ABC transporter signature motif; other site 1193292007282 Walker B; other site 1193292007283 D-loop; other site 1193292007284 H-loop/switch region; other site 1193292007285 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292007286 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1193292007287 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1193292007288 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 1193292007289 dimer interface [polypeptide binding]; other site 1193292007290 conserved gate region; other site 1193292007291 putative PBP binding loops; other site 1193292007292 ABC-ATPase subunit interface; other site 1193292007293 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1193292007294 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 1193292007295 dimer interface [polypeptide binding]; other site 1193292007296 conserved gate region; other site 1193292007297 putative PBP binding loops; other site 1193292007298 ABC-ATPase subunit interface; other site 1193292007299 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1193292007300 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 1193292007301 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 1193292007302 Chloramphenicol acetyltransferase; Region: CAT; cl02008 1193292007303 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 1193292007304 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292007305 putative metal binding site [ion binding]; other site 1193292007306 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292007307 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292007308 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292007309 LysE type translocator; Region: LysE; cl00565 1193292007310 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1193292007311 active site clefts [active] 1193292007312 zinc binding site [ion binding]; other site 1193292007313 dimer interface [polypeptide binding]; other site 1193292007314 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; cl17355 1193292007315 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1193292007316 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1193292007317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007318 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 1193292007319 dimerization interface [polypeptide binding]; other site 1193292007320 Cupin; Region: Cupin_6; pfam12852 1193292007321 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1193292007322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292007323 short chain dehydrogenase; Provisional; Region: PRK06180 1193292007324 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1193292007325 NADP binding site [chemical binding]; other site 1193292007326 active site 1193292007327 steroid binding site; other site 1193292007328 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1193292007329 multidrug efflux protein; Reviewed; Region: PRK01766 1193292007330 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1193292007331 cation binding site [ion binding]; other site 1193292007332 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1193292007333 Lumazine binding domain; Region: Lum_binding; pfam00677 1193292007334 Lumazine binding domain; Region: Lum_binding; pfam00677 1193292007335 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1193292007336 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 1193292007337 S-adenosylmethionine binding site [chemical binding]; other site 1193292007338 putative transporter; Provisional; Region: PRK11043 1193292007339 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 1193292007340 putative substrate translocation pore; other site 1193292007341 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1193292007342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007343 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 1193292007344 dimerization interface [polypeptide binding]; other site 1193292007345 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1193292007346 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 1193292007347 putative substrate translocation pore; other site 1193292007348 superoxide dismutase; Provisional; Region: PRK10543 1193292007349 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1193292007350 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1193292007351 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1193292007352 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292007353 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1193292007354 NlpC/P60 family; Region: NLPC_P60; pfam00877 1193292007355 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1193292007356 putative GSH binding site [chemical binding]; other site 1193292007357 catalytic residues [active] 1193292007358 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1193292007359 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1193292007360 dimer interface [polypeptide binding]; other site 1193292007361 catalytic site [active] 1193292007362 putative active site [active] 1193292007363 putative substrate binding site [chemical binding]; other site 1193292007364 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292007365 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1193292007366 dimer interface [polypeptide binding]; other site 1193292007367 active site 1193292007368 metal binding site [ion binding]; metal-binding site 1193292007369 glutathione binding site [chemical binding]; other site 1193292007370 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1193292007371 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 1193292007372 FMN binding site [chemical binding]; other site 1193292007373 active site 1193292007374 substrate binding site [chemical binding]; other site 1193292007375 catalytic residue [active] 1193292007376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292007377 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292007378 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1193292007379 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 1193292007380 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292007381 active site 1193292007382 catalytic tetrad [active] 1193292007383 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1193292007384 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 1193292007385 E-class dimer interface [polypeptide binding]; other site 1193292007386 P-class dimer interface [polypeptide binding]; other site 1193292007387 active site 1193292007388 Cu2+ binding site [ion binding]; other site 1193292007389 Zn2+ binding site [ion binding]; other site 1193292007390 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1193292007391 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1193292007392 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1193292007393 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292007394 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292007395 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1193292007396 transcriptional regulator SlyA; Provisional; Region: PRK03573 1193292007397 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1193292007398 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292007399 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292007400 metal binding site [ion binding]; metal-binding site 1193292007401 active site 1193292007402 I-site; other site 1193292007403 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1193292007404 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1193292007405 lysozyme inhibitor; Provisional; Region: PRK11372 1193292007406 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1193292007407 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1193292007408 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1193292007409 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1193292007410 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1193292007411 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1193292007412 active site 1193292007413 HIGH motif; other site 1193292007414 dimer interface [polypeptide binding]; other site 1193292007415 KMSKS motif; other site 1193292007416 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 1193292007417 RNA binding surface [nucleotide binding]; other site 1193292007418 pyridoxamine kinase; Validated; Region: PRK05756 1193292007419 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 1193292007420 dimer interface [polypeptide binding]; other site 1193292007421 pyridoxal binding site [chemical binding]; other site 1193292007422 ATP binding site [chemical binding]; other site 1193292007423 glutathionine S-transferase; Provisional; Region: PRK10542 1193292007424 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1193292007425 C-terminal domain interface [polypeptide binding]; other site 1193292007426 GSH binding site (G-site) [chemical binding]; other site 1193292007427 dimer interface [polypeptide binding]; other site 1193292007428 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1193292007429 N-terminal domain interface [polypeptide binding]; other site 1193292007430 dimer interface [polypeptide binding]; other site 1193292007431 substrate binding pocket (H-site) [chemical binding]; other site 1193292007432 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1193292007433 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 1193292007434 endonuclease III; Provisional; Region: PRK10702 1193292007435 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1193292007436 minor groove reading motif; other site 1193292007437 helix-hairpin-helix signature motif; other site 1193292007438 substrate binding pocket [chemical binding]; other site 1193292007439 active site 1193292007440 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1193292007441 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1193292007442 electron transport complex protein RnfG; Validated; Region: PRK01908 1193292007443 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1193292007444 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 1193292007445 SLBB domain; Region: SLBB; pfam10531 1193292007446 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1193292007447 ferredoxin; Provisional; Region: PRK08764 1193292007448 Putative Fe-S cluster; Region: FeS; cl17515 1193292007449 4Fe-4S binding domain; Region: Fer4; cl02805 1193292007450 electron transport complex protein RsxA; Provisional; Region: PRK05151 1193292007451 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 1193292007452 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 1193292007453 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1193292007454 beta-galactosidase; Region: BGL; TIGR03356 1193292007455 putative oxidoreductase; Provisional; Region: PRK11579 1193292007456 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292007457 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292007458 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 1193292007459 putative substrate translocation pore; other site 1193292007460 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1193292007461 Predicted transcriptional regulators [Transcription]; Region: COG1733 1193292007462 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1193292007463 cytochrome b561; Provisional; Region: PRK11513 1193292007464 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1193292007465 putative metal binding site [ion binding]; other site 1193292007466 putative homodimer interface [polypeptide binding]; other site 1193292007467 putative homotetramer interface [polypeptide binding]; other site 1193292007468 putative homodimer-homodimer interface [polypeptide binding]; other site 1193292007469 putative allosteric switch controlling residues; other site 1193292007470 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1193292007471 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1193292007472 substrate binding site [chemical binding]; other site 1193292007473 catalytic Zn binding site [ion binding]; other site 1193292007474 NAD binding site [chemical binding]; other site 1193292007475 structural Zn binding site [ion binding]; other site 1193292007476 dimer interface [polypeptide binding]; other site 1193292007477 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1193292007478 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1193292007479 Trp docking motif [polypeptide binding]; other site 1193292007480 putative active site [active] 1193292007481 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1193292007482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007483 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1193292007484 putative dimerization interface [polypeptide binding]; other site 1193292007485 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1193292007486 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 1193292007487 heterodimer interface [polypeptide binding]; other site 1193292007488 active site 1193292007489 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 1193292007490 heterodimer interface [polypeptide binding]; other site 1193292007491 multimer interface [polypeptide binding]; other site 1193292007492 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1193292007493 active site 1193292007494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1193292007495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1193292007496 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1193292007497 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 1193292007498 substrate binding pocket [chemical binding]; other site 1193292007499 catalytic triad [active] 1193292007500 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1193292007501 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1193292007502 catalytic Zn binding site [ion binding]; other site 1193292007503 NAD binding site [chemical binding]; other site 1193292007504 structural Zn binding site [ion binding]; other site 1193292007505 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 1193292007506 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1193292007507 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1193292007508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292007509 Coenzyme A binding pocket [chemical binding]; other site 1193292007510 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 1193292007511 putative trimer interface [polypeptide binding]; other site 1193292007512 putative CoA binding site [chemical binding]; other site 1193292007513 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; cd00208 1193292007514 putative trimer interface [polypeptide binding]; other site 1193292007515 putative CoA binding site [chemical binding]; other site 1193292007516 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1193292007517 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1193292007518 gating phenylalanine in ion channel; other site 1193292007519 tellurite resistance protein TehB; Provisional; Region: PRK11207 1193292007520 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 1193292007521 S-adenosylmethionine binding site [chemical binding]; other site 1193292007522 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1193292007523 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1193292007524 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1193292007525 benzoate transporter; Region: benE; TIGR00843 1193292007526 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1193292007527 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 1193292007528 non-specific DNA binding site [nucleotide binding]; other site 1193292007529 salt bridge; other site 1193292007530 sequence-specific DNA binding site [nucleotide binding]; other site 1193292007531 Cupin domain; Region: Cupin_2; pfam07883 1193292007532 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1193292007533 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 1193292007534 Peptidase family U32; Region: Peptidase_U32; pfam01136 1193292007535 Collagenase; Region: DUF3656; pfam12392 1193292007536 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 1193292007537 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 1193292007538 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1193292007539 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1193292007540 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1193292007541 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1193292007542 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1193292007543 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 1193292007544 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292007545 DNA-binding site [nucleotide binding]; DNA binding site 1193292007546 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 1193292007547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292007548 homodimer interface [polypeptide binding]; other site 1193292007549 catalytic residue [active] 1193292007550 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1193292007551 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1193292007552 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1193292007553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292007554 Walker A/P-loop; other site 1193292007555 ATP binding site [chemical binding]; other site 1193292007556 Q-loop/lid; other site 1193292007557 ABC transporter signature motif; other site 1193292007558 Walker B; other site 1193292007559 D-loop; other site 1193292007560 H-loop/switch region; other site 1193292007561 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 1193292007562 dimer interface [polypeptide binding]; other site 1193292007563 conserved gate region; other site 1193292007564 putative PBP binding loops; other site 1193292007565 ABC-ATPase subunit interface; other site 1193292007566 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1193292007567 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 1193292007568 putative PBP binding loops; other site 1193292007569 dimer interface [polypeptide binding]; other site 1193292007570 ABC-ATPase subunit interface; other site 1193292007571 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1193292007572 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1193292007573 tetrameric interface [polypeptide binding]; other site 1193292007574 NAD binding site [chemical binding]; other site 1193292007575 catalytic residues [active] 1193292007576 substrate binding site [chemical binding]; other site 1193292007577 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 1193292007578 PGAP1-like protein; Region: PGAP1; pfam07819 1193292007579 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1193292007580 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1193292007581 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1193292007582 NAD(P) binding site [chemical binding]; other site 1193292007583 catalytic residues [active] 1193292007584 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1193292007585 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1193292007586 peptide binding site [polypeptide binding]; other site 1193292007587 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 1193292007588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1193292007589 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1193292007590 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292007591 Coenzyme A binding pocket [chemical binding]; other site 1193292007592 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1193292007593 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 1193292007594 sequence-specific DNA binding site [nucleotide binding]; other site 1193292007595 salt bridge; other site 1193292007596 Cupin domain; Region: Cupin_2; pfam07883 1193292007597 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1193292007598 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1193292007599 NAD(P) binding site [chemical binding]; other site 1193292007600 substrate binding site [chemical binding]; other site 1193292007601 dimer interface [polypeptide binding]; other site 1193292007602 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 1193292007603 active site 1193292007604 tetramer interface [polypeptide binding]; other site 1193292007605 hypothetical protein; Provisional; Region: PRK09981 1193292007606 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1193292007607 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1193292007608 active site 1193292007609 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 1193292007610 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1193292007611 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292007612 N-terminal plug; other site 1193292007613 ligand-binding site [chemical binding]; other site 1193292007614 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1193292007615 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1193292007616 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1193292007617 L-asparagine permease; Provisional; Region: PRK15049 1193292007618 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292007619 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007620 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1193292007621 putative effector binding pocket; other site 1193292007622 putative dimerization interface [polypeptide binding]; other site 1193292007623 AAA domain; Region: AAA_17; pfam13207 1193292007624 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1193292007625 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1193292007626 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1193292007627 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 1193292007628 metal binding site [ion binding]; metal-binding site 1193292007629 dimer interface [polypeptide binding]; other site 1193292007630 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1193292007631 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1193292007632 active site 1193292007633 non-prolyl cis peptide bond; other site 1193292007634 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292007635 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 1193292007636 substrate binding pocket [chemical binding]; other site 1193292007637 membrane-bound complex binding site; other site 1193292007638 hinge residues; other site 1193292007639 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292007640 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292007641 Coenzyme A binding pocket [chemical binding]; other site 1193292007642 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 1193292007643 dimer interface [polypeptide binding]; other site 1193292007644 conserved gate region; other site 1193292007645 putative PBP binding loops; other site 1193292007646 ABC-ATPase subunit interface; other site 1193292007647 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292007648 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292007649 Walker A/P-loop; other site 1193292007650 ATP binding site [chemical binding]; other site 1193292007651 Q-loop/lid; other site 1193292007652 ABC transporter signature motif; other site 1193292007653 Walker B; other site 1193292007654 D-loop; other site 1193292007655 H-loop/switch region; other site 1193292007656 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292007657 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292007658 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 1193292007659 substrate binding pocket [chemical binding]; other site 1193292007660 membrane-bound complex binding site; other site 1193292007661 hinge residues; other site 1193292007662 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1193292007663 C-terminal domain interface [polypeptide binding]; other site 1193292007664 GSH binding site (G-site) [chemical binding]; other site 1193292007665 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1193292007666 dimer interface [polypeptide binding]; other site 1193292007667 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1193292007668 dimer interface [polypeptide binding]; other site 1193292007669 N-terminal domain interface [polypeptide binding]; other site 1193292007670 substrate binding pocket (H-site) [chemical binding]; other site 1193292007671 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 1193292007672 active site 1 [active] 1193292007673 dimer interface [polypeptide binding]; other site 1193292007674 hexamer interface [polypeptide binding]; other site 1193292007675 active site 2 [active] 1193292007676 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1193292007677 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1193292007678 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1193292007679 Walker A/P-loop; other site 1193292007680 ATP binding site [chemical binding]; other site 1193292007681 Q-loop/lid; other site 1193292007682 ABC transporter signature motif; other site 1193292007683 Walker B; other site 1193292007684 D-loop; other site 1193292007685 H-loop/switch region; other site 1193292007686 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1193292007687 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1193292007688 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1193292007689 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 1193292007690 dimer interface [polypeptide binding]; other site 1193292007691 conserved gate region; other site 1193292007692 putative PBP binding loops; other site 1193292007693 ABC-ATPase subunit interface; other site 1193292007694 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 1193292007695 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 1193292007696 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 1193292007697 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1193292007698 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1193292007699 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1193292007700 [4Fe-4S] binding site [ion binding]; other site 1193292007701 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292007702 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292007703 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292007704 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1193292007705 molybdopterin cofactor binding site; other site 1193292007706 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1193292007707 TetR family transcriptional regulator; Provisional; Region: PRK14996 1193292007708 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292007709 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1193292007710 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 1193292007711 putative substrate translocation pore; other site 1193292007712 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1193292007713 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1193292007714 Bacterial transcriptional regulator; Region: IclR; pfam01614 1193292007715 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 1193292007716 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1193292007717 octamer interface [polypeptide binding]; other site 1193292007718 active site 1193292007719 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1193292007720 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1193292007721 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 1193292007722 dimer interface [polypeptide binding]; other site 1193292007723 active site 1193292007724 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1193292007725 iron-sulfur cluster [ion binding]; other site 1193292007726 [2Fe-2S] cluster binding site [ion binding]; other site 1193292007727 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1193292007728 putative alpha subunit interface [polypeptide binding]; other site 1193292007729 putative active site [active] 1193292007730 putative substrate binding site [chemical binding]; other site 1193292007731 Fe binding site [ion binding]; other site 1193292007732 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1193292007733 inter-subunit interface; other site 1193292007734 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1193292007735 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292007736 catalytic loop [active] 1193292007737 iron binding site [ion binding]; other site 1193292007738 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1193292007739 FAD binding pocket [chemical binding]; other site 1193292007740 FAD binding motif [chemical binding]; other site 1193292007741 phosphate binding motif [ion binding]; other site 1193292007742 beta-alpha-beta structure motif; other site 1193292007743 NAD binding pocket [chemical binding]; other site 1193292007744 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1193292007745 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1193292007746 putative NAD(P) binding site [chemical binding]; other site 1193292007747 active site 1193292007748 aromatic amino acid exporter; Provisional; Region: PRK11689 1193292007749 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1193292007750 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1193292007751 [4Fe-4S] binding site [ion binding]; other site 1193292007752 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292007753 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292007754 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1193292007755 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1193292007756 molybdopterin cofactor binding site; other site 1193292007757 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1193292007758 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1193292007759 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 1193292007760 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1193292007761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292007762 Walker A/P-loop; other site 1193292007763 ATP binding site [chemical binding]; other site 1193292007764 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1193292007765 malate dehydrogenase; Provisional; Region: PRK13529 1193292007766 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1193292007767 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1193292007768 NAD(P) binding site [chemical binding]; other site 1193292007769 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 1193292007770 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1193292007771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292007772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007773 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292007774 putative effector binding pocket; other site 1193292007775 dimerization interface [polypeptide binding]; other site 1193292007776 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 1193292007777 oxidoreductase; Provisional; Region: PRK06128 1193292007778 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1193292007779 NAD binding site [chemical binding]; other site 1193292007780 metal binding site [ion binding]; metal-binding site 1193292007781 active site 1193292007782 General stress protein [General function prediction only]; Region: GsiB; COG3729 1193292007783 Domain of unknown function (DUF892); Region: DUF892; pfam05974 1193292007784 trehalose synthase; Region: treS_nterm; TIGR02456 1193292007785 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1193292007786 active site 1193292007787 catalytic site [active] 1193292007788 short chain dehydrogenase; Provisional; Region: PRK07109 1193292007789 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1193292007790 putative NAD(P) binding site [chemical binding]; other site 1193292007791 active site 1193292007792 Predicted membrane protein [Function unknown]; Region: COG2323 1193292007793 hypothetical protein; Provisional; Region: PRK10053 1193292007794 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1193292007795 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1193292007796 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292007797 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 1193292007798 substrate binding pocket [chemical binding]; other site 1193292007799 membrane-bound complex binding site; other site 1193292007800 hinge residues; other site 1193292007801 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1193292007802 Cation efflux family; Region: Cation_efflux; pfam01545 1193292007803 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1193292007804 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1193292007805 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1193292007806 putative molybdopterin cofactor binding site [chemical binding]; other site 1193292007807 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1193292007808 putative molybdopterin cofactor binding site; other site 1193292007809 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292007810 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007811 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 1193292007812 dimerization interface [polypeptide binding]; other site 1193292007813 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1193292007814 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1193292007815 Cupin domain; Region: Cupin_2; cl17218 1193292007816 Helix-turn-helix domain; Region: HTH_18; pfam12833 1193292007817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292007818 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1193292007819 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1193292007820 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 1193292007821 substrate binding pocket [chemical binding]; other site 1193292007822 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1193292007823 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1193292007824 active site 1193292007825 P-loop; other site 1193292007826 phosphorylation site [posttranslational modification] 1193292007827 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1193292007828 methionine cluster; other site 1193292007829 active site 1193292007830 phosphorylation site [posttranslational modification] 1193292007831 metal binding site [ion binding]; metal-binding site 1193292007832 benzoate transport; Region: 2A0115; TIGR00895 1193292007833 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 1193292007834 putative substrate translocation pore; other site 1193292007835 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 1193292007836 putative substrate translocation pore; other site 1193292007837 magnesium transport protein MgtC; Provisional; Region: PRK15385 1193292007838 MgtC family; Region: MgtC; pfam02308 1193292007839 Predicted ATPase [General function prediction only]; Region: COG1485 1193292007840 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1193292007841 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1193292007842 heme binding site [chemical binding]; other site 1193292007843 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1193292007844 heme binding site [chemical binding]; other site 1193292007845 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292007846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007847 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292007848 putative effector binding pocket; other site 1193292007849 dimerization interface [polypeptide binding]; other site 1193292007850 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1193292007851 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1193292007852 penicillin-binding protein 2; Provisional; Region: PRK10795 1193292007853 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1193292007854 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1193292007855 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1193292007856 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1193292007857 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1193292007858 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 1193292007859 FeS/SAM binding site; other site 1193292007860 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1193292007861 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1193292007862 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1193292007863 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1193292007864 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1193292007865 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1193292007866 active site 1193292007867 dimer interface [polypeptide binding]; other site 1193292007868 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1193292007869 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1193292007870 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1193292007871 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 1193292007872 active site 1193292007873 phosphorylation site [posttranslational modification] 1193292007874 intermolecular recognition site; other site 1193292007875 dimerization interface [polypeptide binding]; other site 1193292007876 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 1193292007877 DNA binding site [nucleotide binding] 1193292007878 HAMP domain; Region: HAMP; pfam00672 1193292007879 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 1193292007880 dimer interface [polypeptide binding]; other site 1193292007881 phosphorylation site [posttranslational modification] 1193292007882 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 1193292007883 ATP binding site [chemical binding]; other site 1193292007884 Mg2+ binding site [ion binding]; other site 1193292007885 G-X-G motif; other site 1193292007886 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1193292007887 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1193292007888 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 1193292007889 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1193292007890 catalytic residues [active] 1193292007891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292007892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292007893 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 1193292007894 dimerization interface [polypeptide binding]; other site 1193292007895 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1193292007896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292007897 catalytic residue [active] 1193292007898 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1193292007899 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 1193292007900 inhibitor-cofactor binding pocket; inhibition site 1193292007901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292007902 catalytic residue [active] 1193292007903 NMT1/THI5 like; Region: NMT1; pfam09084 1193292007904 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1193292007905 substrate binding pocket [chemical binding]; other site 1193292007906 membrane-bound complex binding site; other site 1193292007907 hinge residues; other site 1193292007908 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1193292007909 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 1193292007910 dimer interface [polypeptide binding]; other site 1193292007911 conserved gate region; other site 1193292007912 ABC-ATPase subunit interface; other site 1193292007913 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1193292007914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292007915 Walker A/P-loop; other site 1193292007916 ATP binding site [chemical binding]; other site 1193292007917 Q-loop/lid; other site 1193292007918 ABC transporter signature motif; other site 1193292007919 Walker B; other site 1193292007920 D-loop; other site 1193292007921 H-loop/switch region; other site 1193292007922 Putative transcription activator [Transcription]; Region: TenA; COG0819 1193292007923 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 1193292007924 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292007925 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292007926 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292007927 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1193292007928 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1193292007929 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1193292007930 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292007931 DNA binding site [nucleotide binding] 1193292007932 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1193292007933 PAS domain S-box; Region: sensory_box; TIGR00229 1193292007934 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1193292007935 putative active site [active] 1193292007936 heme pocket [chemical binding]; other site 1193292007937 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292007938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292007939 metal binding site [ion binding]; metal-binding site 1193292007940 active site 1193292007941 I-site; other site 1193292007942 guanine deaminase; Provisional; Region: PRK09228 1193292007943 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1193292007944 active site 1193292007945 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1193292007946 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1193292007947 Na binding site [ion binding]; other site 1193292007948 putative substrate binding site [chemical binding]; other site 1193292007949 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1193292007950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292007951 DNA-binding site [nucleotide binding]; DNA binding site 1193292007952 FCD domain; Region: FCD; pfam07729 1193292007953 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1193292007954 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1193292007955 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1193292007956 active site 1193292007957 catalytic site [active] 1193292007958 tetramer interface [polypeptide binding]; other site 1193292007959 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1193292007960 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1193292007961 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1193292007962 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292007963 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292007964 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1193292007965 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1193292007966 catalytic triad [active] 1193292007967 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1193292007968 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 1193292007969 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1193292007970 dimer interface [polypeptide binding]; other site 1193292007971 active site 1193292007972 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1193292007973 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 1193292007974 putative substrate translocation pore; other site 1193292007975 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 1193292007976 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1193292007977 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292007978 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292007979 Predicted transcriptional regulators [Transcription]; Region: COG1733 1193292007980 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1193292007981 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1193292007982 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1193292007983 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292007984 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292007985 Coenzyme A binding pocket [chemical binding]; other site 1193292007986 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 1193292007987 amidase; Provisional; Region: PRK09201 1193292007988 Amidase; Region: Amidase; pfam01425 1193292007989 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 1193292007990 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1193292007991 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1193292007992 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1193292007993 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292007994 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 1193292007995 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292007996 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 1193292007997 substrate binding pocket [chemical binding]; other site 1193292007998 membrane-bound complex binding site; other site 1193292007999 hinge residues; other site 1193292008000 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292008001 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 1193292008002 dimer interface [polypeptide binding]; other site 1193292008003 conserved gate region; other site 1193292008004 putative PBP binding loops; other site 1193292008005 ABC-ATPase subunit interface; other site 1193292008006 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 1193292008007 dimer interface [polypeptide binding]; other site 1193292008008 conserved gate region; other site 1193292008009 putative PBP binding loops; other site 1193292008010 ABC-ATPase subunit interface; other site 1193292008011 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292008012 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292008013 Walker A/P-loop; other site 1193292008014 ATP binding site [chemical binding]; other site 1193292008015 Q-loop/lid; other site 1193292008016 ABC transporter signature motif; other site 1193292008017 Walker B; other site 1193292008018 D-loop; other site 1193292008019 H-loop/switch region; other site 1193292008020 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1193292008021 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292008022 catalytic residue [active] 1193292008023 allantoate amidohydrolase; Reviewed; Region: PRK09290 1193292008024 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1193292008025 active site 1193292008026 metal binding site [ion binding]; metal-binding site 1193292008027 dimer interface [polypeptide binding]; other site 1193292008028 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1193292008029 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 1193292008030 FMN binding site [chemical binding]; other site 1193292008031 substrate binding site [chemical binding]; other site 1193292008032 putative catalytic residue [active] 1193292008033 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292008034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008035 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1193292008036 putative effector binding pocket; other site 1193292008037 putative dimerization interface [polypeptide binding]; other site 1193292008038 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1193292008039 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1193292008040 active site 1193292008041 FMN binding site [chemical binding]; other site 1193292008042 substrate binding site [chemical binding]; other site 1193292008043 homotetramer interface [polypeptide binding]; other site 1193292008044 catalytic residue [active] 1193292008045 hypothetical protein; Provisional; Region: PRK09897 1193292008046 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1193292008047 putative sialic acid transporter; Region: 2A0112; TIGR00891 1193292008048 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 1193292008049 putative substrate translocation pore; other site 1193292008050 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1193292008051 EamA-like transporter family; Region: EamA; cl17759 1193292008052 EamA-like transporter family; Region: EamA; pfam00892 1193292008053 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292008054 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292008055 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1193292008056 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1193292008057 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1193292008058 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 1193292008059 putative substrate translocation pore; other site 1193292008060 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292008061 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292008062 DNA binding site [nucleotide binding] 1193292008063 domain linker motif; other site 1193292008064 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1193292008065 putative dimerization interface [polypeptide binding]; other site 1193292008066 putative ligand binding site [chemical binding]; other site 1193292008067 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 1193292008068 active site 1193292008069 phosphorylation site [posttranslational modification] 1193292008070 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 1193292008071 active site 1193292008072 P-loop; other site 1193292008073 phosphorylation site [posttranslational modification] 1193292008074 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1193292008075 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1193292008076 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 1193292008077 substrate binding site [chemical binding]; other site 1193292008078 hexamer interface [polypeptide binding]; other site 1193292008079 metal binding site [ion binding]; metal-binding site 1193292008080 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 1193292008081 active site 1193292008082 phosphorylation site [posttranslational modification] 1193292008083 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 1193292008084 active site 1193292008085 P-loop; other site 1193292008086 phosphorylation site [posttranslational modification] 1193292008087 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1193292008088 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1193292008089 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1193292008090 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1193292008091 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 1193292008092 putative substrate translocation pore; other site 1193292008093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292008094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008095 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292008096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008097 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292008098 putative effector binding pocket; other site 1193292008099 dimerization interface [polypeptide binding]; other site 1193292008100 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1193292008101 TolA C-terminal; Region: TolA; pfam06519 1193292008102 TolA protein; Region: tolA_full; TIGR02794 1193292008103 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 1193292008104 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1193292008105 metal binding site [ion binding]; metal-binding site 1193292008106 dimer interface [polypeptide binding]; other site 1193292008107 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1193292008108 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 1193292008109 active site 1193292008110 substrate binding pocket [chemical binding]; other site 1193292008111 homodimer interaction site [polypeptide binding]; other site 1193292008112 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292008113 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 1193292008114 TM-ABC transporter signature motif; other site 1193292008115 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292008116 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1193292008117 Walker A/P-loop; other site 1193292008118 ATP binding site [chemical binding]; other site 1193292008119 Q-loop/lid; other site 1193292008120 ABC transporter signature motif; other site 1193292008121 Walker B; other site 1193292008122 D-loop; other site 1193292008123 H-loop/switch region; other site 1193292008124 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292008125 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292008126 DNA binding site [nucleotide binding] 1193292008127 domain linker motif; other site 1193292008128 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_11; cd06293 1193292008129 putative dimerization interface [polypeptide binding]; other site 1193292008130 putative ligand binding site [chemical binding]; other site 1193292008131 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1193292008132 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1193292008133 ligand binding site [chemical binding]; other site 1193292008134 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292008135 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 1193292008136 substrate binding site [chemical binding]; other site 1193292008137 ATP binding site [chemical binding]; other site 1193292008138 BtpA family; Region: BtpA; cl00440 1193292008139 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1193292008140 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1193292008141 BON domain; Region: BON; pfam04972 1193292008142 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292008143 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1193292008144 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 1193292008145 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 1193292008146 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1193292008147 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1193292008148 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 1193292008149 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1193292008150 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 1193292008151 dimer interface [polypeptide binding]; other site 1193292008152 phosphorylation site [posttranslational modification] 1193292008153 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 1193292008154 ATP binding site [chemical binding]; other site 1193292008155 Mg2+ binding site [ion binding]; other site 1193292008156 G-X-G motif; other site 1193292008157 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1193292008158 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 1193292008159 active site 1193292008160 phosphorylation site [posttranslational modification] 1193292008161 intermolecular recognition site; other site 1193292008162 dimerization interface [polypeptide binding]; other site 1193292008163 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1193292008164 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1193292008165 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 1193292008166 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292008167 active site 1193292008168 catalytic tetrad [active] 1193292008169 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292008170 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292008171 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292008172 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1193292008173 D-xylulose kinases, subgroup 3; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_3; cd07811 1193292008174 putative N- and C-terminal domain interface [polypeptide binding]; other site 1193292008175 putative active site [active] 1193292008176 putative MgATP binding site [chemical binding]; other site 1193292008177 catalytic site [active] 1193292008178 metal binding site [ion binding]; metal-binding site 1193292008179 putative xylulose binding site [chemical binding]; other site 1193292008180 putative homodimer interface [polypeptide binding]; other site 1193292008181 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1193292008182 intersubunit interface [polypeptide binding]; other site 1193292008183 active site 1193292008184 catalytic residue [active] 1193292008185 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292008186 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292008187 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292008188 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1193292008189 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 1193292008190 substrate binding site [chemical binding]; other site 1193292008191 hexamer interface [polypeptide binding]; other site 1193292008192 metal binding site [ion binding]; metal-binding site 1193292008193 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1193292008194 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292008195 substrate binding site [chemical binding]; other site 1193292008196 dimer interface [polypeptide binding]; other site 1193292008197 ATP binding site [chemical binding]; other site 1193292008198 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1193292008199 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 1193292008200 putative substrate translocation pore; other site 1193292008201 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292008202 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 1193292008203 active site 1193292008204 metal binding site [ion binding]; metal-binding site 1193292008205 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1193292008206 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1193292008207 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1193292008208 acyl-activating enzyme (AAE) consensus motif; other site 1193292008209 acyl-activating enzyme (AAE) consensus motif; other site 1193292008210 putative AMP binding site [chemical binding]; other site 1193292008211 putative active site [active] 1193292008212 putative CoA binding site [chemical binding]; other site 1193292008213 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1193292008214 Coenzyme A transferase; Region: CoA_trans; smart00882 1193292008215 Coenzyme A transferase; Region: CoA_trans; cl17247 1193292008216 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1193292008217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292008218 NAD(P) binding site [chemical binding]; other site 1193292008219 active site 1193292008220 putative acyltransferase; Provisional; Region: PRK05790 1193292008221 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1193292008222 dimer interface [polypeptide binding]; other site 1193292008223 active site 1193292008224 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1193292008225 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 1193292008226 putative substrate translocation pore; other site 1193292008227 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1193292008228 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 1193292008229 putative substrate translocation pore; other site 1193292008230 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292008231 glycerate kinase; Region: TIGR00045 1193292008232 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1193292008233 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1193292008234 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1193292008235 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1193292008236 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1193292008237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292008238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008239 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1193292008240 putative dimerization interface [polypeptide binding]; other site 1193292008241 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1193292008242 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1193292008243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292008244 DNA-binding site [nucleotide binding]; DNA binding site 1193292008245 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1193292008246 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 1193292008247 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1193292008248 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 1193292008249 active site turn [active] 1193292008250 phosphorylation site [posttranslational modification] 1193292008251 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1193292008252 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 1193292008253 NAD binding site [chemical binding]; other site 1193292008254 sugar binding site [chemical binding]; other site 1193292008255 divalent metal binding site [ion binding]; other site 1193292008256 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292008257 dimer interface [polypeptide binding]; other site 1193292008258 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1193292008259 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 1193292008260 putative substrate translocation pore; other site 1193292008261 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 1193292008262 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 1193292008263 active site 1193292008264 phosphorylation site [posttranslational modification] 1193292008265 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1193292008266 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1193292008267 PAS domain; Region: PAS_9; pfam13426 1193292008268 putative active site [active] 1193292008269 heme pocket [chemical binding]; other site 1193292008270 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292008271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292008272 metal binding site [ion binding]; metal-binding site 1193292008273 active site 1193292008274 I-site; other site 1193292008275 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292008276 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1193292008277 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 1193292008278 active site 1193292008279 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292008280 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1193292008281 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292008282 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292008283 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1193292008284 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292008285 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292008286 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292008287 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292008288 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1193292008289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1193292008290 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1193292008291 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1193292008292 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1193292008293 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1193292008294 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1193292008295 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 1193292008296 non-specific DNA binding site [nucleotide binding]; other site 1193292008297 salt bridge; other site 1193292008298 sequence-specific DNA binding site [nucleotide binding]; other site 1193292008299 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1193292008300 active site 1193292008301 homotetramer interface [polypeptide binding]; other site 1193292008302 OHCU decarboxylase; Region: UraD_2; TIGR03180 1193292008303 xanthine permease; Region: pbuX; TIGR03173 1193292008304 hypothetical protein; Provisional; Region: PRK07236 1193292008305 FAD binding domain; Region: FAD_binding_3; pfam01494 1193292008306 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292008307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008308 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1193292008309 dimerization interface [polypeptide binding]; other site 1193292008310 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1193292008311 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1193292008312 [2Fe-2S] cluster binding site [ion binding]; other site 1193292008313 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1193292008314 hydrophobic ligand binding site; other site 1193292008315 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1193292008316 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1193292008317 FMN-binding pocket [chemical binding]; other site 1193292008318 flavin binding motif; other site 1193292008319 phosphate binding motif [ion binding]; other site 1193292008320 beta-alpha-beta structure motif; other site 1193292008321 NAD binding pocket [chemical binding]; other site 1193292008322 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292008323 catalytic loop [active] 1193292008324 iron binding site [ion binding]; other site 1193292008325 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 1193292008326 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 1193292008327 putative substrate translocation pore; other site 1193292008328 Cupin; Region: Cupin_6; pfam12852 1193292008329 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292008330 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292008331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292008332 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1193292008333 Cupin domain; Region: Cupin_2; cl17218 1193292008334 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 1193292008335 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1193292008336 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1193292008337 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1193292008338 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1193292008339 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1193292008340 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292008341 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1193292008342 Walker A/P-loop; other site 1193292008343 ATP binding site [chemical binding]; other site 1193292008344 Q-loop/lid; other site 1193292008345 ABC transporter signature motif; other site 1193292008346 Walker B; other site 1193292008347 D-loop; other site 1193292008348 H-loop/switch region; other site 1193292008349 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 1193292008350 dimer interface [polypeptide binding]; other site 1193292008351 conserved gate region; other site 1193292008352 ABC-ATPase subunit interface; other site 1193292008353 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1193292008354 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 1193292008355 FMN binding site [chemical binding]; other site 1193292008356 substrate binding site [chemical binding]; other site 1193292008357 putative catalytic residue [active] 1193292008358 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292008359 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008360 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 1193292008361 dimerization interface [polypeptide binding]; other site 1193292008362 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 1193292008363 major facilitator superfamily transporter; Provisional; Region: PRK05122 1193292008364 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 1193292008365 putative substrate translocation pore; other site 1193292008366 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1193292008367 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 1193292008368 S-adenosylmethionine binding site [chemical binding]; other site 1193292008369 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1193292008370 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1193292008371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292008372 Coenzyme A binding pocket [chemical binding]; other site 1193292008373 altronate oxidoreductase; Provisional; Region: PRK03643 1193292008374 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1193292008375 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1193292008376 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1193292008377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292008378 Coenzyme A binding pocket [chemical binding]; other site 1193292008379 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292008380 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292008381 metal binding site [ion binding]; metal-binding site 1193292008382 active site 1193292008383 I-site; other site 1193292008384 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 1193292008385 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1193292008386 glutaminase; Provisional; Region: PRK00971 1193292008387 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1193292008388 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1193292008389 NAD(P) binding site [chemical binding]; other site 1193292008390 catalytic residues [active] 1193292008391 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1193292008392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008393 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 1193292008394 putative dimerization interface [polypeptide binding]; other site 1193292008395 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1193292008396 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1193292008397 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292008398 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1193292008399 NAD binding site [chemical binding]; other site 1193292008400 dimer interface [polypeptide binding]; other site 1193292008401 substrate binding site [chemical binding]; other site 1193292008402 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292008403 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292008404 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292008405 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional; Region: pdxA; PRK03371 1193292008406 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1193292008407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1193292008408 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1193292008409 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1193292008410 active site 1193292008411 NAD binding site [chemical binding]; other site 1193292008412 metal binding site [ion binding]; metal-binding site 1193292008413 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1193292008414 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1193292008415 inhibitor site; inhibition site 1193292008416 active site 1193292008417 dimer interface [polypeptide binding]; other site 1193292008418 catalytic residue [active] 1193292008419 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1193292008420 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1193292008421 putative ligand binding site [chemical binding]; other site 1193292008422 putative NAD binding site [chemical binding]; other site 1193292008423 catalytic site [active] 1193292008424 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 1193292008425 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292008426 putative substrate translocation pore; other site 1193292008427 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1193292008428 putative arabinose transporter; Provisional; Region: PRK03545 1193292008429 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 1193292008430 putative substrate translocation pore; other site 1193292008431 inner membrane protein; Provisional; Region: PRK10995 1193292008432 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 1193292008433 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1193292008434 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 1193292008435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292008436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292008437 MarB protein; Region: MarB; pfam13999 1193292008438 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1193292008439 putative transporter; Provisional; Region: PRK10054 1193292008440 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 1193292008441 putative substrate translocation pore; other site 1193292008442 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1193292008443 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 1193292008444 non-specific DNA binding site [nucleotide binding]; other site 1193292008445 salt bridge; other site 1193292008446 sequence-specific DNA binding site [nucleotide binding]; other site 1193292008447 2TM domain; Region: 2TM; pfam13239 1193292008448 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1193292008449 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1193292008450 Walker A/P-loop; other site 1193292008451 ATP binding site [chemical binding]; other site 1193292008452 Q-loop/lid; other site 1193292008453 ABC transporter signature motif; other site 1193292008454 Walker B; other site 1193292008455 D-loop; other site 1193292008456 H-loop/switch region; other site 1193292008457 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1193292008458 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1193292008459 Walker A/P-loop; other site 1193292008460 ATP binding site [chemical binding]; other site 1193292008461 Q-loop/lid; other site 1193292008462 ABC transporter signature motif; other site 1193292008463 Walker B; other site 1193292008464 D-loop; other site 1193292008465 H-loop/switch region; other site 1193292008466 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1193292008467 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1193292008468 TM-ABC transporter signature motif; other site 1193292008469 HEAT repeats; Region: HEAT_2; pfam13646 1193292008470 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1193292008471 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292008472 TM-ABC transporter signature motif; other site 1193292008473 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1193292008474 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1193292008475 putative ligand binding site [chemical binding]; other site 1193292008476 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1193292008477 substrate binding site [chemical binding]; other site 1193292008478 THF binding site; other site 1193292008479 zinc-binding site [ion binding]; other site 1193292008480 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 1193292008481 active site residue [active] 1193292008482 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1193292008483 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1193292008484 conserved cys residue [active] 1193292008485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292008486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292008487 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292008488 Coenzyme A binding pocket [chemical binding]; other site 1193292008489 lac repressor; Reviewed; Region: lacI; PRK09526 1193292008490 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292008491 DNA binding site [nucleotide binding] 1193292008492 domain linker motif; other site 1193292008493 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 1193292008494 ligand binding site [chemical binding]; other site 1193292008495 dimerization interface (open form) [polypeptide binding]; other site 1193292008496 dimerization interface (closed form) [polypeptide binding]; other site 1193292008497 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1193292008498 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1193292008499 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1193292008500 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1193292008501 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1193292008502 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 1193292008503 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 1193292008504 Predicted ATPase [General function prediction only]; Region: COG4637 1193292008505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292008506 Walker A/P-loop; other site 1193292008507 ATP binding site [chemical binding]; other site 1193292008508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292008509 ABC transporter signature motif; other site 1193292008510 Walker B; other site 1193292008511 D-loop; other site 1193292008512 H-loop/switch region; other site 1193292008513 beta-lactamase TEM; Provisional; Region: PRK15442 1193292008514 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1193292008515 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292008516 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292008517 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292008518 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1193292008519 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1193292008520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1193292008521 putative aldolase; Validated; Region: PRK08130 1193292008522 active site 1193292008523 intersubunit interface [polypeptide binding]; other site 1193292008524 Zn2+ binding site [ion binding]; other site 1193292008525 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1193292008526 putative transporter; Provisional; Region: PRK09821 1193292008527 GntP family permease; Region: GntP_permease; pfam02447 1193292008528 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 1193292008529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292008530 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1193292008531 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 1193292008532 DNA binding residues [nucleotide binding] 1193292008533 dimerization interface [polypeptide binding]; other site 1193292008534 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1193292008535 Sensors of blue-light using FAD; Region: BLUF; smart01034 1193292008536 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292008537 hypothetical protein; Validated; Region: PRK03657 1193292008538 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1193292008539 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1193292008540 putative dimer interface [polypeptide binding]; other site 1193292008541 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1193292008542 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 1193292008543 DNA binding residues [nucleotide binding] 1193292008544 dimerization interface [polypeptide binding]; other site 1193292008545 hypothetical protein; Provisional; Region: PRK09951 1193292008546 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 1193292008547 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1193292008548 active site 1193292008549 Zn binding site [ion binding]; other site 1193292008550 malonic semialdehyde reductase; Provisional; Region: PRK10538 1193292008551 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1193292008552 putative NAD(P) binding site [chemical binding]; other site 1193292008553 homodimer interface [polypeptide binding]; other site 1193292008554 homotetramer interface [polypeptide binding]; other site 1193292008555 active site 1193292008556 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1193292008557 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292008558 DNA-binding site [nucleotide binding]; DNA binding site 1193292008559 FCD domain; Region: FCD; pfam07729 1193292008560 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 1193292008561 Ligand Binding Site [chemical binding]; other site 1193292008562 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1193292008563 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1193292008564 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1193292008565 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 1193292008566 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292008567 putative substrate translocation pore; other site 1193292008568 hypothetical protein; Provisional; Region: PRK02237 1193292008569 hypothetical protein; Provisional; Region: PRK13659 1193292008570 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1193292008571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292008572 Coenzyme A binding pocket [chemical binding]; other site 1193292008573 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1193292008574 lipoprotein; Reviewed; Region: PRK02939 1193292008575 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1193292008576 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 1193292008577 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1193292008578 putative [Fe4-S4] binding site [ion binding]; other site 1193292008579 putative molybdopterin cofactor binding site [chemical binding]; other site 1193292008580 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1193292008581 putative molybdopterin cofactor binding site; other site 1193292008582 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1193292008583 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1193292008584 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 1193292008585 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 1193292008586 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1193292008587 Cl- selectivity filter; other site 1193292008588 Cl- binding residues [ion binding]; other site 1193292008589 pore gating glutamate residue; other site 1193292008590 dimer interface [polypeptide binding]; other site 1193292008591 putative dithiobiotin synthetase; Provisional; Region: PRK12374 1193292008592 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1193292008593 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1193292008594 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1193292008595 nucleotide binding site [chemical binding]; other site 1193292008596 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1193292008597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008598 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1193292008599 dimerization interface [polypeptide binding]; other site 1193292008600 substrate binding pocket [chemical binding]; other site 1193292008601 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1193292008602 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 1193292008603 putative substrate translocation pore; other site 1193292008604 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1193292008605 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1193292008606 active site 1193292008607 Zn binding site [ion binding]; other site 1193292008608 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1193292008609 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 1193292008610 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 1193292008611 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 1193292008612 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1193292008613 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1193292008614 Coenzyme A transferase; Region: CoA_trans; cl17247 1193292008615 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1193292008616 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1193292008617 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1193292008618 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 1193292008619 he Auxin Efflux Carrier (AEC) Family; Region: 2a69; TIGR00946 1193292008620 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1193292008621 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1193292008622 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1193292008623 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1193292008624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292008625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008626 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 1193292008627 putative dimerization interface [polypeptide binding]; other site 1193292008628 malate:quinone oxidoreductase; Validated; Region: PRK05257 1193292008629 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1193292008630 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1193292008631 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1193292008632 putative active site [active] 1193292008633 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1193292008634 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 1193292008635 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1193292008636 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1193292008637 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1193292008638 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1193292008639 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1193292008640 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1193292008641 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1193292008642 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1193292008643 tetramer interface [polypeptide binding]; other site 1193292008644 active site 1193292008645 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1193292008646 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1193292008647 dimer interface [polypeptide binding]; other site 1193292008648 active site 1193292008649 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1193292008650 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 1193292008651 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1193292008652 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1193292008653 Bacterial transcriptional regulator; Region: IclR; pfam01614 1193292008654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1193292008655 Smr domain; Region: Smr; pfam01713 1193292008656 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1193292008657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008658 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 1193292008659 putative substrate binding pocket [chemical binding]; other site 1193292008660 putative dimerization interface [polypeptide binding]; other site 1193292008661 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 1193292008662 amidohydrolase; Region: amidohydrolases; TIGR01891 1193292008663 putative metal binding site [ion binding]; other site 1193292008664 dimer interface [polypeptide binding]; other site 1193292008665 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1193292008666 amidohydrolase; Region: amidohydrolases; TIGR01891 1193292008667 putative metal binding site [ion binding]; other site 1193292008668 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 1193292008669 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1193292008670 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 1193292008671 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1193292008672 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 1193292008673 DNA binding site [nucleotide binding] 1193292008674 active site 1193292008675 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1193292008676 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 1193292008677 ligand binding site [chemical binding]; other site 1193292008678 flexible hinge region; other site 1193292008679 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 1193292008680 putative switch regulator; other site 1193292008681 non-specific DNA interactions [nucleotide binding]; other site 1193292008682 DNA binding site [nucleotide binding] 1193292008683 sequence specific DNA binding site [nucleotide binding]; other site 1193292008684 putative cAMP binding site [chemical binding]; other site 1193292008685 universal stress protein UspE; Provisional; Region: PRK11175 1193292008686 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 1193292008687 Ligand Binding Site [chemical binding]; other site 1193292008688 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 1193292008689 Ligand Binding Site [chemical binding]; other site 1193292008690 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1193292008691 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1193292008692 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1193292008693 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1193292008694 ligand binding site [chemical binding]; other site 1193292008695 homodimer interface [polypeptide binding]; other site 1193292008696 NAD(P) binding site [chemical binding]; other site 1193292008697 trimer interface B [polypeptide binding]; other site 1193292008698 trimer interface A [polypeptide binding]; other site 1193292008699 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1193292008700 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292008701 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292008702 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292008703 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1193292008704 Spore germination protein; Region: Spore_permease; cl17796 1193292008705 dihydromonapterin reductase; Provisional; Region: PRK06483 1193292008706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292008707 NAD(P) binding site [chemical binding]; other site 1193292008708 active site 1193292008709 GlpM protein; Region: GlpM; pfam06942 1193292008710 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1193292008711 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 1193292008712 active site 1193292008713 phosphorylation site [posttranslational modification] 1193292008714 intermolecular recognition site; other site 1193292008715 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 1193292008716 DNA binding site [nucleotide binding] 1193292008717 sensor protein RstB; Provisional; Region: PRK10604 1193292008718 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 1193292008719 dimerization interface [polypeptide binding]; other site 1193292008720 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 1193292008721 dimer interface [polypeptide binding]; other site 1193292008722 phosphorylation site [posttranslational modification] 1193292008723 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 1193292008724 ATP binding site [chemical binding]; other site 1193292008725 Mg2+ binding site [ion binding]; other site 1193292008726 G-X-G motif; other site 1193292008727 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 1193292008728 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1193292008729 Class II fumarases; Region: Fumarase_classII; cd01362 1193292008730 active site 1193292008731 tetramer interface [polypeptide binding]; other site 1193292008732 fumarate hydratase; Provisional; Region: PRK15389 1193292008733 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 1193292008734 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1193292008735 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1193292008736 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1193292008737 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1193292008738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1193292008739 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1193292008740 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 1193292008741 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292008742 DNA binding site [nucleotide binding] 1193292008743 domain linker motif; other site 1193292008744 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1193292008745 putative dimerization interface [polypeptide binding]; other site 1193292008746 putative ligand binding site [chemical binding]; other site 1193292008747 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 1193292008748 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1193292008749 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 1193292008750 active site turn [active] 1193292008751 phosphorylation site [posttranslational modification] 1193292008752 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1193292008753 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 1193292008754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292008755 homodimer interface [polypeptide binding]; other site 1193292008756 catalytic residue [active] 1193292008757 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1193292008758 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1193292008759 Cl binding site [ion binding]; other site 1193292008760 oligomer interface [polypeptide binding]; other site 1193292008761 YdfZ protein; Region: YdfZ; pfam14001 1193292008762 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1193292008763 putative inner membrane protein; Provisional; Region: PRK11099 1193292008764 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 1193292008765 CPxP motif; other site 1193292008766 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 1193292008767 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 1193292008768 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1193292008769 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1193292008770 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1193292008771 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1193292008772 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1193292008773 NAD binding site [chemical binding]; other site 1193292008774 catalytic residues [active] 1193292008775 substrate binding site [chemical binding]; other site 1193292008776 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1193292008777 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 1193292008778 putative active site [active] 1193292008779 shikimate transporter; Provisional; Region: PRK09952 1193292008780 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 1193292008781 putative substrate translocation pore; other site 1193292008782 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1193292008783 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1193292008784 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1193292008785 active site 1193292008786 Zn binding site [ion binding]; other site 1193292008787 succinylarginine dihydrolase; Provisional; Region: PRK13281 1193292008788 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1193292008789 catalytic residues [active] 1193292008790 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1193292008791 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1193292008792 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 1193292008793 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 1193292008794 inhibitor-cofactor binding pocket; inhibition site 1193292008795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292008796 catalytic residue [active] 1193292008797 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1193292008798 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1193292008799 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1193292008800 NAD(P) binding site [chemical binding]; other site 1193292008801 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 1193292008802 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292008803 active site 1193292008804 catalytic tetrad [active] 1193292008805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292008806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292008807 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 1193292008808 dimerization interface [polypeptide binding]; other site 1193292008809 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1193292008810 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1193292008811 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 1193292008812 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292008813 putative substrate translocation pore; other site 1193292008814 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1193292008815 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292008816 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292008817 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1193292008818 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1193292008819 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 1193292008820 S-adenosylmethionine binding site [chemical binding]; other site 1193292008821 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1193292008822 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 1193292008823 ATP binding site [chemical binding]; other site 1193292008824 putative Mg++ binding site [ion binding]; other site 1193292008825 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 1193292008826 nucleotide binding region [chemical binding]; other site 1193292008827 ATP-binding site [chemical binding]; other site 1193292008828 Helicase associated domain (HA2); Region: HA2; pfam04408 1193292008829 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1193292008830 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1193292008831 azoreductase; Reviewed; Region: PRK00170 1193292008832 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1193292008833 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1193292008834 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 1193292008835 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 1193292008836 putative trimer interface [polypeptide binding]; other site 1193292008837 putative metal binding site [ion binding]; other site 1193292008838 PaaX-like protein; Region: PaaX; pfam07848 1193292008839 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1193292008840 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1193292008841 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1193292008842 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1193292008843 active site 1193292008844 AMP binding site [chemical binding]; other site 1193292008845 homodimer interface [polypeptide binding]; other site 1193292008846 acyl-activating enzyme (AAE) consensus motif; other site 1193292008847 CoA binding site [chemical binding]; other site 1193292008848 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1193292008849 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1193292008850 dimer interface [polypeptide binding]; other site 1193292008851 active site 1193292008852 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 1193292008853 CoenzymeA binding site [chemical binding]; other site 1193292008854 subunit interaction site [polypeptide binding]; other site 1193292008855 PHB binding site; other site 1193292008856 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1193292008857 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1193292008858 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1193292008859 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1193292008860 enoyl-CoA hydratase; Provisional; Region: PRK08140 1193292008861 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 1193292008862 substrate binding site [chemical binding]; other site 1193292008863 oxyanion hole (OAH) forming residues; other site 1193292008864 trimer interface [polypeptide binding]; other site 1193292008865 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 1193292008866 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 1193292008867 substrate binding site [chemical binding]; other site 1193292008868 oxyanion hole (OAH) forming residues; other site 1193292008869 trimer interface [polypeptide binding]; other site 1193292008870 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1193292008871 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1193292008872 FAD binding pocket [chemical binding]; other site 1193292008873 FAD binding motif [chemical binding]; other site 1193292008874 phosphate binding motif [ion binding]; other site 1193292008875 beta-alpha-beta structure motif; other site 1193292008876 NAD(p) ribose binding residues [chemical binding]; other site 1193292008877 NAD binding pocket [chemical binding]; other site 1193292008878 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1193292008879 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292008880 catalytic loop [active] 1193292008881 iron binding site [ion binding]; other site 1193292008882 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1193292008883 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1193292008884 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1193292008885 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1193292008886 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1193292008887 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1193292008888 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1193292008889 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1193292008890 substrate binding site [chemical binding]; other site 1193292008891 dimer interface [polypeptide binding]; other site 1193292008892 NADP binding site [chemical binding]; other site 1193292008893 catalytic residues [active] 1193292008894 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 1193292008895 substrate binding site [chemical binding]; other site 1193292008896 tyramine oxidase; Provisional; Region: tynA; PRK14696 1193292008897 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1193292008898 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 1193292008899 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 1193292008900 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 1193292008901 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1193292008902 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 1193292008903 NADP binding site [chemical binding]; other site 1193292008904 dimer interface [polypeptide binding]; other site 1193292008905 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 1193292008906 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1193292008907 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1193292008908 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1193292008909 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1193292008910 NAD(P) binding site [chemical binding]; other site 1193292008911 catalytic residues [active] 1193292008912 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1193292008913 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292008914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 1193292008915 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1193292008916 hypothetical protein; Provisional; Region: PRK10695 1193292008917 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1193292008918 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1193292008919 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1193292008920 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1193292008921 putative ligand binding site [chemical binding]; other site 1193292008922 putative NAD binding site [chemical binding]; other site 1193292008923 catalytic site [active] 1193292008924 META domain; Region: META; cl01245 1193292008925 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1193292008926 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1193292008927 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1193292008928 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1193292008929 dimer interface [polypeptide binding]; other site 1193292008930 PYR/PP interface [polypeptide binding]; other site 1193292008931 TPP binding site [chemical binding]; other site 1193292008932 substrate binding site [chemical binding]; other site 1193292008933 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1193292008934 Domain of unknown function; Region: EKR; pfam10371 1193292008935 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1193292008936 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1193292008937 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1193292008938 TPP-binding site [chemical binding]; other site 1193292008939 dimer interface [polypeptide binding]; other site 1193292008940 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1193292008941 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1193292008942 trimer interface [polypeptide binding]; other site 1193292008943 eyelet of channel; other site 1193292008944 KTSC domain; Region: KTSC; pfam13619 1193292008945 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 1193292008946 Ligand Binding Site [chemical binding]; other site 1193292008947 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1193292008948 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1193292008949 Ligand Binding Site [chemical binding]; other site 1193292008950 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1193292008951 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 1193292008952 ATP binding site [chemical binding]; other site 1193292008953 Mg++ binding site [ion binding]; other site 1193292008954 motif III; other site 1193292008955 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 1193292008956 nucleotide binding region [chemical binding]; other site 1193292008957 ATP-binding site [chemical binding]; other site 1193292008958 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1193292008959 putative RNA binding site [nucleotide binding]; other site 1193292008960 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1193292008961 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1193292008962 Cl binding site [ion binding]; other site 1193292008963 oligomer interface [polypeptide binding]; other site 1193292008964 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292008965 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292008966 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292008967 putative oxidoreductase; Provisional; Region: PRK11579 1193292008968 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292008969 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292008970 aromatic amino acid transporter; Provisional; Region: PRK10238 1193292008971 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1193292008972 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1193292008973 putative DNA binding site [nucleotide binding]; other site 1193292008974 putative Zn2+ binding site [ion binding]; other site 1193292008975 AsnC family; Region: AsnC_trans_reg; pfam01037 1193292008976 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1193292008977 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1193292008978 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1193292008979 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1193292008980 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 1193292008981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292008982 homodimer interface [polypeptide binding]; other site 1193292008983 catalytic residue [active] 1193292008984 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1193292008985 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1193292008986 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1193292008987 Walker A/P-loop; other site 1193292008988 ATP binding site [chemical binding]; other site 1193292008989 Q-loop/lid; other site 1193292008990 ABC transporter signature motif; other site 1193292008991 Walker B; other site 1193292008992 D-loop; other site 1193292008993 H-loop/switch region; other site 1193292008994 NIL domain; Region: NIL; pfam09383 1193292008995 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1193292008996 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1193292008997 transaminase; Reviewed; Region: PRK08068 1193292008998 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 1193292008999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292009000 homodimer interface [polypeptide binding]; other site 1193292009001 catalytic residue [active] 1193292009002 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1193292009003 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1193292009004 putative NAD(P) binding site [chemical binding]; other site 1193292009005 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292009006 NmrA-like family; Region: NmrA; pfam05368 1193292009007 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 1193292009008 NADP binding site [chemical binding]; other site 1193292009009 active site 1193292009010 regulatory binding site [polypeptide binding]; other site 1193292009011 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1193292009012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292009013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009014 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 1193292009015 putative substrate binding pocket [chemical binding]; other site 1193292009016 putative dimerization interface [polypeptide binding]; other site 1193292009017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292009018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009019 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1193292009020 putative effector binding pocket; other site 1193292009021 putative dimerization interface [polypeptide binding]; other site 1193292009022 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 1193292009023 NmrA-like family; Region: NmrA; pfam05368 1193292009024 NAD(P) binding site [chemical binding]; other site 1193292009025 active site lysine 1193292009026 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292009027 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1193292009028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292009029 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292009030 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1193292009031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292009032 NAD(P) binding site [chemical binding]; other site 1193292009033 active site 1193292009034 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292009035 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292009036 oxidoreductase; Provisional; Region: PRK12742 1193292009037 classical (c) SDRs; Region: SDR_c; cd05233 1193292009038 NAD(P) binding site [chemical binding]; other site 1193292009039 active site 1193292009040 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1193292009041 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1193292009042 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1193292009043 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1193292009044 PAAR motif; Region: PAAR_motif; pfam05488 1193292009045 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1193292009046 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1193292009047 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1193292009048 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1193292009049 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1193292009050 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292009051 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1193292009052 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292009053 TIGR02594 family protein; Region: TIGR02594 1193292009054 HTH-like domain; Region: HTH_21; pfam13276 1193292009055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1193292009056 Integrase core domain; Region: rve; pfam00665 1193292009057 Integrase core domain; Region: rve_3; pfam13683 1193292009058 Transposase; Region: HTH_Tnp_1; cl17663 1193292009059 virion protein; Provisional; Region: V; PHA02564 1193292009060 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292009061 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1193292009062 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292009063 TIGR02594 family protein; Region: TIGR02594 1193292009064 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1193292009065 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1193292009066 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1193292009067 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1193292009068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1193292009069 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1193292009070 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 1193292009071 Walker A motif; other site 1193292009072 ATP binding site [chemical binding]; other site 1193292009073 Walker B motif; other site 1193292009074 arginine finger; other site 1193292009075 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 1193292009076 Walker A motif; other site 1193292009077 ATP binding site [chemical binding]; other site 1193292009078 Walker B motif; other site 1193292009079 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1193292009080 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1193292009081 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1193292009082 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1193292009083 ligand binding site [chemical binding]; other site 1193292009084 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1193292009085 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1193292009086 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1193292009087 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1193292009088 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1193292009089 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1193292009090 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1193292009091 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1193292009092 conserved cys residue [active] 1193292009093 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1193292009094 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292009095 Zn2+ binding site [ion binding]; other site 1193292009096 Mg2+ binding site [ion binding]; other site 1193292009097 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1193292009098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292009099 NAD(P) binding site [chemical binding]; other site 1193292009100 active site 1193292009101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292009102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009103 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1193292009104 putative effector binding pocket; other site 1193292009105 putative dimerization interface [polypeptide binding]; other site 1193292009106 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1193292009107 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1193292009108 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1193292009109 anti sigma factor interaction site; other site 1193292009110 regulatory phosphorylation site [posttranslational modification]; other site 1193292009111 Response regulator receiver domain; Region: Response_reg; pfam00072 1193292009112 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 1193292009113 active site 1193292009114 phosphorylation site [posttranslational modification] 1193292009115 intermolecular recognition site; other site 1193292009116 dimerization interface [polypeptide binding]; other site 1193292009117 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1193292009118 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1193292009119 OpgC protein; Region: OpgC_C; cl17858 1193292009120 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1193292009121 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1193292009122 DXD motif; other site 1193292009123 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1193292009124 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1193292009125 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1193292009126 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1193292009127 heme-binding site [chemical binding]; other site 1193292009128 PAS fold; Region: PAS_7; pfam12860 1193292009129 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1193292009130 PAS fold; Region: PAS_3; pfam08447 1193292009131 putative active site [active] 1193292009132 heme pocket [chemical binding]; other site 1193292009133 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 1193292009134 dimer interface [polypeptide binding]; other site 1193292009135 phosphorylation site [posttranslational modification] 1193292009136 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 1193292009137 ATP binding site [chemical binding]; other site 1193292009138 Mg2+ binding site [ion binding]; other site 1193292009139 G-X-G motif; other site 1193292009140 Response regulator receiver domain; Region: Response_reg; pfam00072 1193292009141 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 1193292009142 active site 1193292009143 phosphorylation site [posttranslational modification] 1193292009144 intermolecular recognition site; other site 1193292009145 dimerization interface [polypeptide binding]; other site 1193292009146 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1193292009147 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 1193292009148 active site 1193292009149 phosphorylation site [posttranslational modification] 1193292009150 intermolecular recognition site; other site 1193292009151 dimerization interface [polypeptide binding]; other site 1193292009152 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1193292009153 putative binding surface; other site 1193292009154 active site 1193292009155 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1193292009156 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1193292009157 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1193292009158 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 1193292009159 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292009160 active site 1193292009161 catalytic tetrad [active] 1193292009162 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 1193292009163 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 1193292009164 putative substrate translocation pore; other site 1193292009165 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1193292009166 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292009167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009168 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1193292009169 putative effector binding pocket; other site 1193292009170 putative dimerization interface [polypeptide binding]; other site 1193292009171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1193292009172 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1193292009173 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1193292009174 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1193292009175 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1193292009176 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1193292009177 peptide binding site [polypeptide binding]; other site 1193292009178 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 1193292009179 putative active site [active] 1193292009180 Zn binding site [ion binding]; other site 1193292009181 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1193292009182 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1193292009183 active site 1193292009184 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 1193292009185 dimer interface [polypeptide binding]; other site 1193292009186 catalytic triad [active] 1193292009187 peroxidatic and resolving cysteines [active] 1193292009188 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1193292009189 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1193292009190 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1193292009191 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 1193292009192 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1193292009193 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1193292009194 putative active site [active] 1193292009195 heme pocket [chemical binding]; other site 1193292009196 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 1193292009197 Walker A motif; other site 1193292009198 ATP binding site [chemical binding]; other site 1193292009199 Walker B motif; other site 1193292009200 arginine finger; other site 1193292009201 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1193292009202 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1193292009203 NAD binding site [chemical binding]; other site 1193292009204 sugar binding site [chemical binding]; other site 1193292009205 divalent metal binding site [ion binding]; other site 1193292009206 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292009207 dimer interface [polypeptide binding]; other site 1193292009208 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 1193292009209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009210 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1193292009211 dimerization interface [polypeptide binding]; other site 1193292009212 substrate binding pocket [chemical binding]; other site 1193292009213 hypothetical protein; Provisional; Region: PRK05415 1193292009214 Domain of unknown function (DUF697); Region: DUF697; cl12064 1193292009215 Predicted ATPase [General function prediction only]; Region: COG3106 1193292009216 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 1193292009217 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 1193292009218 phage shock protein C; Region: phageshock_pspC; TIGR02978 1193292009219 phage shock protein B; Provisional; Region: pspB; PRK09458 1193292009220 phage shock protein PspA; Provisional; Region: PRK10698 1193292009221 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1193292009222 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 1193292009223 Walker A motif; other site 1193292009224 ATP binding site [chemical binding]; other site 1193292009225 Walker B motif; other site 1193292009226 arginine finger; other site 1193292009227 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1193292009228 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292009229 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 1193292009230 putative substrate translocation pore; other site 1193292009231 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1193292009232 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1193292009233 metal binding site [ion binding]; metal-binding site 1193292009234 putative dimer interface [polypeptide binding]; other site 1193292009235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292009236 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292009237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292009238 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 1193292009239 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1193292009240 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 1193292009241 salt bridge; other site 1193292009242 non-specific DNA binding site [nucleotide binding]; other site 1193292009243 sequence-specific DNA binding site [nucleotide binding]; other site 1193292009244 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 1193292009245 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1193292009246 putative NAD(P) binding site [chemical binding]; other site 1193292009247 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1193292009248 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1193292009249 peptide binding site [polypeptide binding]; other site 1193292009250 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 1193292009251 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 1193292009252 dimer interface [polypeptide binding]; other site 1193292009253 conserved gate region; other site 1193292009254 putative PBP binding loops; other site 1193292009255 ABC-ATPase subunit interface; other site 1193292009256 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 1193292009257 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1193292009258 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 1193292009259 dimer interface [polypeptide binding]; other site 1193292009260 conserved gate region; other site 1193292009261 putative PBP binding loops; other site 1193292009262 ABC-ATPase subunit interface; other site 1193292009263 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 1193292009264 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292009265 Walker A/P-loop; other site 1193292009266 ATP binding site [chemical binding]; other site 1193292009267 Q-loop/lid; other site 1193292009268 ABC transporter signature motif; other site 1193292009269 Walker B; other site 1193292009270 D-loop; other site 1193292009271 H-loop/switch region; other site 1193292009272 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292009273 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 1193292009274 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292009275 Walker A/P-loop; other site 1193292009276 ATP binding site [chemical binding]; other site 1193292009277 Q-loop/lid; other site 1193292009278 ABC transporter signature motif; other site 1193292009279 Walker B; other site 1193292009280 D-loop; other site 1193292009281 H-loop/switch region; other site 1193292009282 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1193292009283 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1193292009284 Na binding site [ion binding]; other site 1193292009285 HutD; Region: HutD; pfam05962 1193292009286 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 1193292009287 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1193292009288 NAD binding site [chemical binding]; other site 1193292009289 homotetramer interface [polypeptide binding]; other site 1193292009290 homodimer interface [polypeptide binding]; other site 1193292009291 substrate binding site [chemical binding]; other site 1193292009292 active site 1193292009293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 1193292009294 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1193292009295 exoribonuclease II; Provisional; Region: PRK05054 1193292009296 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1193292009297 RNB domain; Region: RNB; pfam00773 1193292009298 S1 RNA binding domain; Region: S1; pfam00575 1193292009299 hypothetical protein; Provisional; Region: PRK13658 1193292009300 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1193292009301 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1193292009302 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292009303 lipoprotein; Provisional; Region: PRK10540 1193292009304 translation initiation factor Sui1; Validated; Region: PRK06824 1193292009305 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1193292009306 putative rRNA binding site [nucleotide binding]; other site 1193292009307 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 1193292009308 active site 1193292009309 dimer interface [polypeptide binding]; other site 1193292009310 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1193292009311 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1193292009312 binding surface 1193292009313 TPR motif; other site 1193292009314 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 1193292009315 binding surface 1193292009316 TPR motif; other site 1193292009317 Predicted membrane protein [Function unknown]; Region: COG3771 1193292009318 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1193292009319 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 1193292009320 active site 1193292009321 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 1193292009322 dimerization interface [polypeptide binding]; other site 1193292009323 active site 1193292009324 aconitate hydratase; Validated; Region: PRK09277 1193292009325 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1193292009326 substrate binding site [chemical binding]; other site 1193292009327 ligand binding site [chemical binding]; other site 1193292009328 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 1193292009329 substrate binding site [chemical binding]; other site 1193292009330 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1193292009331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009332 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 1193292009333 substrate binding site [chemical binding]; other site 1193292009334 putative dimerization interface [polypeptide binding]; other site 1193292009335 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1193292009336 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 1193292009337 active site 1193292009338 interdomain interaction site; other site 1193292009339 putative metal-binding site [ion binding]; other site 1193292009340 nucleotide binding site [chemical binding]; other site 1193292009341 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 1193292009342 domain I; other site 1193292009343 DNA binding groove [nucleotide binding] 1193292009344 phosphate binding site [ion binding]; other site 1193292009345 domain II; other site 1193292009346 domain III; other site 1193292009347 nucleotide binding site [chemical binding]; other site 1193292009348 catalytic site [active] 1193292009349 domain IV; other site 1193292009350 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1193292009351 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1193292009352 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1193292009353 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1193292009354 hypothetical protein; Provisional; Region: PRK11037 1193292009355 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1193292009356 putative inner membrane peptidase; Provisional; Region: PRK11778 1193292009357 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1193292009358 tandem repeat interface [polypeptide binding]; other site 1193292009359 oligomer interface [polypeptide binding]; other site 1193292009360 active site residues [active] 1193292009361 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1193292009362 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 1193292009363 NADP binding site [chemical binding]; other site 1193292009364 homodimer interface [polypeptide binding]; other site 1193292009365 active site 1193292009366 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1193292009367 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 1193292009368 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1193292009369 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 1193292009370 RNA binding surface [nucleotide binding]; other site 1193292009371 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1193292009372 probable active site [active] 1193292009373 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1193292009374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009375 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1193292009376 dimerization interface [polypeptide binding]; other site 1193292009377 substrate binding pocket [chemical binding]; other site 1193292009378 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1193292009379 EamA-like transporter family; Region: EamA; pfam00892 1193292009380 hypothetical protein; Provisional; Region: PRK11630 1193292009381 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1193292009382 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1193292009383 active site 1193292009384 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1193292009385 anthranilate synthase component I; Provisional; Region: PRK13564 1193292009386 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1193292009387 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1193292009388 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 1193292009389 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1193292009390 glutamine binding [chemical binding]; other site 1193292009391 catalytic triad [active] 1193292009392 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1193292009393 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1193292009394 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1193292009395 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 1193292009396 active site 1193292009397 ribulose/triose binding site [chemical binding]; other site 1193292009398 phosphate binding site [ion binding]; other site 1193292009399 substrate (anthranilate) binding pocket [chemical binding]; other site 1193292009400 product (indole) binding pocket [chemical binding]; other site 1193292009401 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 1193292009402 active site 1193292009403 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1193292009404 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 1193292009405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292009406 catalytic residue [active] 1193292009407 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1193292009408 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 1193292009409 substrate binding site [chemical binding]; other site 1193292009410 active site 1193292009411 catalytic residues [active] 1193292009412 heterodimer interface [polypeptide binding]; other site 1193292009413 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1193292009414 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1193292009415 MOFRL family; Region: MOFRL; pfam05161 1193292009416 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1193292009417 tartrate dehydrogenase; Region: TTC; TIGR02089 1193292009418 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 1193292009419 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292009420 putative substrate translocation pore; other site 1193292009421 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 1193292009422 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1193292009423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009424 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1193292009425 dimerization interface [polypeptide binding]; other site 1193292009426 substrate binding pocket [chemical binding]; other site 1193292009427 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1193292009428 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 1193292009429 putative DNA binding site [nucleotide binding]; other site 1193292009430 putative Zn2+ binding site [ion binding]; other site 1193292009431 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1193292009432 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1193292009433 putative NAD(P) binding site [chemical binding]; other site 1193292009434 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 1193292009435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292009436 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1193292009437 NAD(P) binding site [chemical binding]; other site 1193292009438 active site 1193292009439 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 1193292009440 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292009441 N-terminal plug; other site 1193292009442 ligand-binding site [chemical binding]; other site 1193292009443 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1193292009444 outer membrane protein W; Provisional; Region: PRK10959 1193292009445 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1193292009446 hypothetical protein; Provisional; Region: PRK02868 1193292009447 intracellular septation protein A; Reviewed; Region: PRK00259 1193292009448 outer membrane receptor FepA; Provisional; Region: PRK13528 1193292009449 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292009450 N-terminal plug; other site 1193292009451 ligand-binding site [chemical binding]; other site 1193292009452 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1193292009453 YniB-like protein; Region: YniB; pfam14002 1193292009454 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1193292009455 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 1193292009456 motif II; other site 1193292009457 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 1193292009458 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1193292009459 NADP binding site [chemical binding]; other site 1193292009460 homodimer interface [polypeptide binding]; other site 1193292009461 active site 1193292009462 inner membrane protein; Provisional; Region: PRK11648 1193292009463 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1193292009464 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1193292009465 cell division modulator; Provisional; Region: PRK10113 1193292009466 hydroperoxidase II; Provisional; Region: katE; PRK11249 1193292009467 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1193292009468 tetramer interface [polypeptide binding]; other site 1193292009469 heme binding pocket [chemical binding]; other site 1193292009470 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1193292009471 domain interactions; other site 1193292009472 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 1193292009473 putative active site [active] 1193292009474 YdjC motif; other site 1193292009475 Mg binding site [ion binding]; other site 1193292009476 putative homodimer interface [polypeptide binding]; other site 1193292009477 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1193292009478 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1193292009479 NAD binding site [chemical binding]; other site 1193292009480 sugar binding site [chemical binding]; other site 1193292009481 divalent metal binding site [ion binding]; other site 1193292009482 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292009483 dimer interface [polypeptide binding]; other site 1193292009484 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 1193292009485 Cupin domain; Region: Cupin_2; pfam07883 1193292009486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292009487 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1193292009488 methionine cluster; other site 1193292009489 active site 1193292009490 phosphorylation site [posttranslational modification] 1193292009491 metal binding site [ion binding]; metal-binding site 1193292009492 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 1193292009493 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1193292009494 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1193292009495 active site 1193292009496 P-loop; other site 1193292009497 phosphorylation site [posttranslational modification] 1193292009498 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1193292009499 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1193292009500 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 1193292009501 homodimer interface [polypeptide binding]; other site 1193292009502 NAD binding pocket [chemical binding]; other site 1193292009503 ATP binding pocket [chemical binding]; other site 1193292009504 Mg binding site [ion binding]; other site 1193292009505 active-site loop [active] 1193292009506 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 1193292009507 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1193292009508 GIY-YIG motif/motif A; other site 1193292009509 active site 1193292009510 catalytic site [active] 1193292009511 putative DNA binding site [nucleotide binding]; other site 1193292009512 metal binding site [ion binding]; metal-binding site 1193292009513 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1193292009514 dimer interface [polypeptide binding]; other site 1193292009515 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1193292009516 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1193292009517 putative active site [active] 1193292009518 Zn binding site [ion binding]; other site 1193292009519 succinylarginine dihydrolase; Provisional; Region: PRK13281 1193292009520 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1193292009521 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1193292009522 NAD(P) binding site [chemical binding]; other site 1193292009523 catalytic residues [active] 1193292009524 arginine succinyltransferase; Provisional; Region: PRK10456 1193292009525 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1193292009526 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 1193292009527 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 1193292009528 inhibitor-cofactor binding pocket; inhibition site 1193292009529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292009530 catalytic residue [active] 1193292009531 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 1193292009532 putative catalytic site [active] 1193292009533 putative phosphate binding site [ion binding]; other site 1193292009534 active site 1193292009535 metal binding site A [ion binding]; metal-binding site 1193292009536 DNA binding site [nucleotide binding] 1193292009537 putative AP binding site [nucleotide binding]; other site 1193292009538 putative metal binding site B [ion binding]; other site 1193292009539 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1193292009540 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1193292009541 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1193292009542 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1193292009543 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1193292009544 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1193292009545 hypothetical protein; Provisional; Region: PRK11622 1193292009546 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1193292009547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292009548 Walker A/P-loop; other site 1193292009549 ATP binding site [chemical binding]; other site 1193292009550 Q-loop/lid; other site 1193292009551 ABC transporter signature motif; other site 1193292009552 Walker B; other site 1193292009553 D-loop; other site 1193292009554 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1193292009555 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 1193292009556 active site residue [active] 1193292009557 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 1193292009558 active site residue [active] 1193292009559 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1193292009560 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1193292009561 active site 1193292009562 8-oxo-dGMP binding site [chemical binding]; other site 1193292009563 nudix motif; other site 1193292009564 metal binding site [ion binding]; metal-binding site 1193292009565 glutamate dehydrogenase; Provisional; Region: PRK09414 1193292009566 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1193292009567 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1193292009568 NAD(P) binding site [chemical binding]; other site 1193292009569 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1193292009570 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1193292009571 NAD(P) binding site [chemical binding]; other site 1193292009572 DNA topoisomerase III; Provisional; Region: PRK07726 1193292009573 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1193292009574 active site 1193292009575 putative interdomain interaction site [polypeptide binding]; other site 1193292009576 putative metal-binding site [ion binding]; other site 1193292009577 putative nucleotide binding site [chemical binding]; other site 1193292009578 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 1193292009579 domain I; other site 1193292009580 DNA binding groove [nucleotide binding] 1193292009581 phosphate binding site [ion binding]; other site 1193292009582 domain II; other site 1193292009583 domain III; other site 1193292009584 nucleotide binding site [chemical binding]; other site 1193292009585 catalytic site [active] 1193292009586 domain IV; other site 1193292009587 selenophosphate synthetase; Provisional; Region: PRK00943 1193292009588 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1193292009589 dimerization interface [polypeptide binding]; other site 1193292009590 putative ATP binding site [chemical binding]; other site 1193292009591 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 1193292009592 active site 1193292009593 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1193292009594 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1193292009595 putative FMN binding site [chemical binding]; other site 1193292009596 protease 4; Provisional; Region: PRK10949 1193292009597 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1193292009598 tandem repeat interface [polypeptide binding]; other site 1193292009599 oligomer interface [polypeptide binding]; other site 1193292009600 active site residues [active] 1193292009601 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 1193292009602 tandem repeat interface [polypeptide binding]; other site 1193292009603 oligomer interface [polypeptide binding]; other site 1193292009604 active site residues [active] 1193292009605 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1193292009606 active site 1193292009607 homodimer interface [polypeptide binding]; other site 1193292009608 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 1193292009609 Isochorismatase family; Region: Isochorismatase; pfam00857 1193292009610 catalytic triad [active] 1193292009611 metal binding site [ion binding]; metal-binding site 1193292009612 conserved cis-peptide bond; other site 1193292009613 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 1193292009614 Glyco_18 domain; Region: Glyco_18; smart00636 1193292009615 active site 1193292009616 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 1193292009617 active site 1193292009618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 1193292009619 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1193292009620 SelR domain; Region: SelR; pfam01641 1193292009621 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1193292009622 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1193292009623 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1193292009624 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1193292009625 active site 1193292009626 phosphate binding residues; other site 1193292009627 catalytic residues [active] 1193292009628 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 1193292009629 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292009630 active site 1193292009631 catalytic tetrad [active] 1193292009632 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1193292009633 PrkA family serine protein kinase; Provisional; Region: PRK15455 1193292009634 AAA ATPase domain; Region: AAA_16; pfam13191 1193292009635 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 1193292009636 Walker A motif; other site 1193292009637 ATP binding site [chemical binding]; other site 1193292009638 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1193292009639 hypothetical protein; Provisional; Region: PRK05325 1193292009640 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14470 1193292009641 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 1193292009642 catalytic residues [active] 1193292009643 dimer interface [polypeptide binding]; other site 1193292009644 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292009645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009646 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 1193292009647 dimerization interface [polypeptide binding]; other site 1193292009648 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1193292009649 short chain dehydrogenase; Provisional; Region: PRK06500 1193292009650 classical (c) SDRs; Region: SDR_c; cd05233 1193292009651 NAD(P) binding site [chemical binding]; other site 1193292009652 active site 1193292009653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292009654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009655 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1193292009656 putative effector binding pocket; other site 1193292009657 putative dimerization interface [polypeptide binding]; other site 1193292009658 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1193292009659 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1193292009660 active site 1193292009661 DNA binding site [nucleotide binding] 1193292009662 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1193292009663 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1193292009664 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 1193292009665 Catalytic site [active] 1193292009666 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1193292009667 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1193292009668 putative active site [active] 1193292009669 putative NTP binding site [chemical binding]; other site 1193292009670 putative nucleic acid binding site [nucleotide binding]; other site 1193292009671 DinI-like family; Region: DinI; cl11630 1193292009672 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1193292009673 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1193292009674 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1193292009675 putative deacylase active site [active] 1193292009676 Predicted membrane protein [Function unknown]; Region: COG2707 1193292009677 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1193292009678 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1193292009679 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 1193292009680 hypothetical protein; Validated; Region: PRK06186 1193292009681 conserved cys residue [active] 1193292009682 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1193292009683 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1193292009684 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1193292009685 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1193292009686 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1193292009687 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1193292009688 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292009689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292009690 metal binding site [ion binding]; metal-binding site 1193292009691 active site 1193292009692 I-site; other site 1193292009693 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 1193292009694 leucine export protein LeuE; Provisional; Region: PRK10958 1193292009695 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1193292009696 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1193292009697 putative acyl-acceptor binding pocket; other site 1193292009698 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1193292009699 active site 1193292009700 homotetramer interface [polypeptide binding]; other site 1193292009701 homodimer interface [polypeptide binding]; other site 1193292009702 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292009703 Zn2+ binding site [ion binding]; other site 1193292009704 Mg2+ binding site [ion binding]; other site 1193292009705 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292009706 Zn2+ binding site [ion binding]; other site 1193292009707 Mg2+ binding site [ion binding]; other site 1193292009708 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 1193292009709 dimerization interface [polypeptide binding]; other site 1193292009710 GAF domain; Region: GAF_3; pfam13492 1193292009711 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292009712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292009713 metal binding site [ion binding]; metal-binding site 1193292009714 active site 1193292009715 I-site; other site 1193292009716 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1193292009717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292009718 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1193292009719 dimerization interface [polypeptide binding]; other site 1193292009720 substrate binding pocket [chemical binding]; other site 1193292009721 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 1193292009722 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292009723 Helix-turn-helix domain; Region: HTH_39; pfam14090 1193292009724 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1193292009725 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1193292009726 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1193292009727 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1193292009728 dimanganese center [ion binding]; other site 1193292009729 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1193292009730 dinuclear metal binding motif [ion binding]; other site 1193292009731 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 1193292009732 dimerization interface [polypeptide binding]; other site 1193292009733 metal binding site [ion binding]; metal-binding site 1193292009734 General stress protein [General function prediction only]; Region: GsiB; COG3729 1193292009735 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1193292009736 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1193292009737 NAD binding site [chemical binding]; other site 1193292009738 catalytic Zn binding site [ion binding]; other site 1193292009739 structural Zn binding site [ion binding]; other site 1193292009740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1193292009741 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1193292009742 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1193292009743 ACT domain-containing protein [General function prediction only]; Region: COG4747 1193292009744 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1193292009745 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 1193292009746 dimerization interface [polypeptide binding]; other site 1193292009747 putative DNA binding site [nucleotide binding]; other site 1193292009748 putative Zn2+ binding site [ion binding]; other site 1193292009749 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1193292009750 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 1193292009751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292009752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292009753 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1193292009754 Phage-related protein, tail component [Function unknown]; Region: COG4733 1193292009755 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1193292009756 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1193292009757 Interdomain contacts; other site 1193292009758 Cytokine receptor motif; other site 1193292009759 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1193292009760 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1193292009761 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1193292009762 Fibronectin type III protein; Region: DUF3672; pfam12421 1193292009763 Phage-related protein, tail component [Function unknown]; Region: COG4723 1193292009764 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1193292009765 MPN+ (JAMM) motif; other site 1193292009766 Zinc-binding site [ion binding]; other site 1193292009767 NlpC/P60 family; Region: NLPC_P60; cl17555 1193292009768 Phage minor tail protein L; Region: Phage_tail_L; cl01908 1193292009769 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1193292009770 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1193292009771 Phage tail protein; Region: Phage_tail_3; pfam08813 1193292009772 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 1193292009773 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1193292009774 Phage capsid family; Region: Phage_capsid; pfam05065 1193292009775 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1193292009776 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1193292009777 tandem repeat interface [polypeptide binding]; other site 1193292009778 oligomer interface [polypeptide binding]; other site 1193292009779 active site residues [active] 1193292009780 Phage portal protein; Region: Phage_portal; pfam04860 1193292009781 Phage-related protein [Function unknown]; Region: COG4695 1193292009782 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1193292009783 Phage terminase, small subunit; Region: Terminase_4; pfam05119 1193292009784 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1193292009785 DinI-like family; Region: DinI; cl11630 1193292009786 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1193292009787 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1193292009788 putative active site [active] 1193292009789 putative NTP binding site [chemical binding]; other site 1193292009790 putative nucleic acid binding site [nucleotide binding]; other site 1193292009791 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1193292009792 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1193292009793 GAF domain; Region: GAF; pfam01590 1193292009794 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292009795 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 1193292009796 Predicted transcriptional regulator [Transcription]; Region: COG1959 1193292009797 Transcriptional regulator; Region: Rrf2; cl17282 1193292009798 KduI/IolB family; Region: KduI; cl01508 1193292009799 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 1193292009800 exonuclease VIII; Reviewed; Region: PRK09709 1193292009801 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1193292009802 active site 1193292009803 catalytic site [active] 1193292009804 substrate binding site [chemical binding]; other site 1193292009805 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1193292009806 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1193292009807 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 1193292009808 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 1193292009809 dimer interface [polypeptide binding]; other site 1193292009810 active site 1193292009811 Int/Topo IB signature motif; other site 1193292009812 isocitrate dehydrogenase; Validated; Region: PRK07362 1193292009813 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1193292009814 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1193292009815 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 1193292009816 probable active site [active] 1193292009817 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1193292009818 nudix motif; other site 1193292009819 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 1193292009820 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1193292009821 putative lysogenization regulator; Reviewed; Region: PRK00218 1193292009822 adenylosuccinate lyase; Provisional; Region: PRK09285 1193292009823 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1193292009824 tetramer interface [polypeptide binding]; other site 1193292009825 active site 1193292009826 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1193292009827 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1193292009828 Helix-turn-helix domain; Region: HTH_18; pfam12833 1193292009829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292009830 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1193292009831 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 1193292009832 active site 1193292009833 phosphorylation site [posttranslational modification] 1193292009834 intermolecular recognition site; other site 1193292009835 dimerization interface [polypeptide binding]; other site 1193292009836 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 1193292009837 DNA binding site [nucleotide binding] 1193292009838 sensor protein PhoQ; Provisional; Region: PRK10815 1193292009839 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 1193292009840 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1193292009841 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 1193292009842 ATP binding site [chemical binding]; other site 1193292009843 Mg2+ binding site [ion binding]; other site 1193292009844 G-X-G motif; other site 1193292009845 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1193292009846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1193292009847 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1193292009848 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1193292009849 metal binding site [ion binding]; metal-binding site 1193292009850 dimer interface [polypeptide binding]; other site 1193292009851 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1193292009852 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1193292009853 Walker A/P-loop; other site 1193292009854 ATP binding site [chemical binding]; other site 1193292009855 Q-loop/lid; other site 1193292009856 ABC transporter signature motif; other site 1193292009857 Walker B; other site 1193292009858 D-loop; other site 1193292009859 H-loop/switch region; other site 1193292009860 TOBE domain; Region: TOBE_2; pfam08402 1193292009861 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1193292009862 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 1193292009863 dimer interface [polypeptide binding]; other site 1193292009864 conserved gate region; other site 1193292009865 putative PBP binding loops; other site 1193292009866 ABC-ATPase subunit interface; other site 1193292009867 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1193292009868 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 1193292009869 dimer interface [polypeptide binding]; other site 1193292009870 conserved gate region; other site 1193292009871 putative PBP binding loops; other site 1193292009872 ABC-ATPase subunit interface; other site 1193292009873 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1193292009874 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1193292009875 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1193292009876 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1193292009877 NAD(P) binding site [chemical binding]; other site 1193292009878 catalytic residues [active] 1193292009879 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1193292009880 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1193292009881 dimer interface [polypeptide binding]; other site 1193292009882 acyl-activating enzyme (AAE) consensus motif; other site 1193292009883 putative active site [active] 1193292009884 AMP binding site [chemical binding]; other site 1193292009885 putative CoA binding site [chemical binding]; other site 1193292009886 transketolase; Reviewed; Region: PRK12753 1193292009887 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 1193292009888 TPP-binding site [chemical binding]; other site 1193292009889 dimer interface [polypeptide binding]; other site 1193292009890 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 1193292009891 PYR/PP interface [polypeptide binding]; other site 1193292009892 dimer interface [polypeptide binding]; other site 1193292009893 TPP binding site [chemical binding]; other site 1193292009894 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1193292009895 transaldolase-like protein; Provisional; Region: PTZ00411 1193292009896 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1193292009897 active site 1193292009898 dimer interface [polypeptide binding]; other site 1193292009899 catalytic residue [active] 1193292009900 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1193292009901 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 1193292009902 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1193292009903 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1193292009904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1193292009905 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 1193292009906 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1193292009907 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 1193292009908 substrate binding site [chemical binding]; other site 1193292009909 dimer interface [polypeptide binding]; other site 1193292009910 triosephosphate isomerase; Provisional; Region: PRK14565 1193292009911 catalytic triad [active] 1193292009912 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1193292009913 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 1193292009914 DNA binding residues [nucleotide binding] 1193292009915 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1193292009916 NAD-dependent deacetylase; Provisional; Region: PRK00481 1193292009917 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1193292009918 NAD+ binding site [chemical binding]; other site 1193292009919 substrate binding site [chemical binding]; other site 1193292009920 Zn binding site [ion binding]; other site 1193292009921 fructokinase; Reviewed; Region: PRK09557 1193292009922 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1193292009923 nucleotide binding site [chemical binding]; other site 1193292009924 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1193292009925 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1193292009926 FtsX-like permease family; Region: FtsX; pfam02687 1193292009927 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 1193292009928 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1193292009929 Walker A/P-loop; other site 1193292009930 ATP binding site [chemical binding]; other site 1193292009931 Q-loop/lid; other site 1193292009932 ABC transporter signature motif; other site 1193292009933 Walker B; other site 1193292009934 D-loop; other site 1193292009935 H-loop/switch region; other site 1193292009936 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1193292009937 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1193292009938 FtsX-like permease family; Region: FtsX; pfam02687 1193292009939 transcription-repair coupling factor; Provisional; Region: PRK10689 1193292009940 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1193292009941 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 1193292009942 ATP binding site [chemical binding]; other site 1193292009943 putative Mg++ binding site [ion binding]; other site 1193292009944 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 1193292009945 nucleotide binding region [chemical binding]; other site 1193292009946 ATP-binding site [chemical binding]; other site 1193292009947 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1193292009948 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292009949 L,D-transpeptidase; Provisional; Region: PRK10190 1193292009950 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1193292009951 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292009952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292009953 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292009954 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1193292009955 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292009956 N-terminal plug; other site 1193292009957 ligand-binding site [chemical binding]; other site 1193292009958 hypothetical protein; Provisional; Region: PRK11280 1193292009959 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1193292009960 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292009961 hypothetical protein; Provisional; Region: PRK04940 1193292009962 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1193292009963 beta-hexosaminidase; Provisional; Region: PRK05337 1193292009964 thiamine kinase; Region: ycfN_thiK; TIGR02721 1193292009965 thiamine kinase; Provisional; Region: thiK; PRK10271 1193292009966 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 1193292009967 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 1193292009968 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1193292009969 putative dimer interface [polypeptide binding]; other site 1193292009970 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1193292009971 nucleotide binding site/active site [active] 1193292009972 HIT family signature motif; other site 1193292009973 catalytic residue [active] 1193292009974 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 1193292009975 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1193292009976 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 1193292009977 active site turn [active] 1193292009978 phosphorylation site [posttranslational modification] 1193292009979 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1193292009980 active site 1193292009981 DNA polymerase III subunit delta'; Validated; Region: PRK07993 1193292009982 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1193292009983 thymidylate kinase; Validated; Region: tmk; PRK00698 1193292009984 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 1193292009985 TMP-binding site; other site 1193292009986 ATP-binding site [chemical binding]; other site 1193292009987 conserved hypothetical protein, YceG family; Region: TIGR00247 1193292009988 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1193292009989 dimerization interface [polypeptide binding]; other site 1193292009990 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1193292009991 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 1193292009992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292009993 catalytic residue [active] 1193292009994 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1193292009995 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1193292009996 dimer interface [polypeptide binding]; other site 1193292009997 active site 1193292009998 acyl carrier protein; Provisional; Region: acpP; PRK00982 1193292009999 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1193292010000 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1193292010001 NAD(P) binding site [chemical binding]; other site 1193292010002 homotetramer interface [polypeptide binding]; other site 1193292010003 homodimer interface [polypeptide binding]; other site 1193292010004 active site 1193292010005 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1193292010006 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1193292010007 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1193292010008 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1193292010009 dimer interface [polypeptide binding]; other site 1193292010010 active site 1193292010011 CoA binding pocket [chemical binding]; other site 1193292010012 putative phosphate acyltransferase; Provisional; Region: PRK05331 1193292010013 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1193292010014 hypothetical protein; Provisional; Region: PRK11193 1193292010015 Maf-like protein; Region: Maf; pfam02545 1193292010016 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 1193292010017 active site 1193292010018 dimer interface [polypeptide binding]; other site 1193292010019 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1193292010020 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 1193292010021 RNA binding surface [nucleotide binding]; other site 1193292010022 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1193292010023 active site 1193292010024 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1193292010025 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 1193292010026 homodimer interface [polypeptide binding]; other site 1193292010027 oligonucleotide binding site [chemical binding]; other site 1193292010028 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1193292010029 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292010030 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292010031 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292010032 putative effector binding pocket; other site 1193292010033 dimerization interface [polypeptide binding]; other site 1193292010034 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1193292010035 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 1193292010036 putative substrate translocation pore; other site 1193292010037 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1193292010038 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1193292010039 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292010040 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292010041 hypothetical protein; Provisional; Region: PRK11239 1193292010042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 1193292010043 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 1193292010044 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1193292010045 multidrug resistance protein MdtH; Provisional; Region: PRK11646 1193292010046 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 1193292010047 putative substrate translocation pore; other site 1193292010048 lipoprotein; Provisional; Region: PRK10598 1193292010049 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1193292010050 active site 1193292010051 substrate binding pocket [chemical binding]; other site 1193292010052 dimer interface [polypeptide binding]; other site 1193292010053 DNA damage-inducible protein I; Provisional; Region: PRK10597 1193292010054 BssS protein family; Region: BssS; cl08210 1193292010055 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1193292010056 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1193292010057 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1193292010058 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1193292010059 active site residue [active] 1193292010060 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1193292010061 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1193292010062 putative acyl-acceptor binding pocket; other site 1193292010063 drug efflux system protein MdtG; Provisional; Region: PRK09874 1193292010064 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 1193292010065 putative substrate translocation pore; other site 1193292010066 secY/secA suppressor protein; Provisional; Region: PRK11467 1193292010067 lipoprotein; Provisional; Region: PRK10175 1193292010068 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1193292010069 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1193292010070 Ligand binding site; other site 1193292010071 DXD motif; other site 1193292010072 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1193292010073 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1193292010074 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1193292010075 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1193292010076 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1193292010077 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292010078 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1193292010079 putative ADP-ribose binding site [chemical binding]; other site 1193292010080 putative active site [active] 1193292010081 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1193292010082 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1193292010083 putative hydrolase; Validated; Region: PRK09248 1193292010084 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 1193292010085 active site 1193292010086 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1193292010087 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1193292010088 putative ligand binding site [chemical binding]; other site 1193292010089 NAD binding site [chemical binding]; other site 1193292010090 dimerization interface [polypeptide binding]; other site 1193292010091 catalytic site [active] 1193292010092 LysR family transcriptional regulator; Provisional; Region: PRK14997 1193292010093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292010094 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1193292010095 putative effector binding pocket; other site 1193292010096 putative dimerization interface [polypeptide binding]; other site 1193292010097 Pirin-related protein [General function prediction only]; Region: COG1741 1193292010098 Pirin; Region: Pirin; pfam02678 1193292010099 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1193292010100 Isochorismatase family; Region: Isochorismatase; pfam00857 1193292010101 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1193292010102 catalytic triad [active] 1193292010103 dimer interface [polypeptide binding]; other site 1193292010104 conserved cis-peptide bond; other site 1193292010105 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1193292010106 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1193292010107 catalytic residues [active] 1193292010108 hinge region; other site 1193292010109 alpha helical domain; other site 1193292010110 hypothetical protein; Provisional; Region: PRK10536 1193292010111 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1193292010112 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1193292010113 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1193292010114 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 1193292010115 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1193292010116 Imelysin; Region: Peptidase_M75; pfam09375 1193292010117 FTR1 family protein; Region: TIGR00145 1193292010118 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1193292010119 Nucleoside recognition; Region: Gate; pfam07670 1193292010120 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1193292010121 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 1193292010122 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1193292010123 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1193292010124 Na binding site [ion binding]; other site 1193292010125 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1193292010126 Predicted transcriptional regulator [Transcription]; Region: COG3905 1193292010127 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1193292010128 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1193292010129 Glutamate binding site [chemical binding]; other site 1193292010130 NAD binding site [chemical binding]; other site 1193292010131 catalytic residues [active] 1193292010132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1193292010133 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 1193292010134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292010135 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1193292010136 pyrimidine utilization protein A; Region: RutA; TIGR03612 1193292010137 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1193292010138 active site 1193292010139 dimer interface [polypeptide binding]; other site 1193292010140 non-prolyl cis peptide bond; other site 1193292010141 insertion regions; other site 1193292010142 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1193292010143 Isochorismatase family; Region: Isochorismatase; pfam00857 1193292010144 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1193292010145 catalytic triad [active] 1193292010146 conserved cis-peptide bond; other site 1193292010147 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1193292010148 homotrimer interaction site [polypeptide binding]; other site 1193292010149 putative active site [active] 1193292010150 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1193292010151 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1193292010152 putative FMN binding site [chemical binding]; other site 1193292010153 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 1193292010154 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1193292010155 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1193292010156 General stress protein [General function prediction only]; Region: GsiB; COG3729 1193292010157 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1193292010158 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1193292010159 hypothetical protein; Provisional; Region: PRK10174 1193292010160 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1193292010161 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1193292010162 catalytic core [active] 1193292010163 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1193292010164 Predicted transcriptional regulators [Transcription]; Region: COG1733 1193292010165 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1193292010166 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1193292010167 classical (c) SDRs; Region: SDR_c; cd05233 1193292010168 NAD(P) binding site [chemical binding]; other site 1193292010169 active site 1193292010170 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1193292010171 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1193292010172 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1193292010173 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1193292010174 catalytic triad [active] 1193292010175 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1193292010176 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 1193292010177 non-specific DNA binding site [nucleotide binding]; other site 1193292010178 salt bridge; other site 1193292010179 sequence-specific DNA binding site [nucleotide binding]; other site 1193292010180 Cupin domain; Region: Cupin_2; pfam07883 1193292010181 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1193292010182 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1193292010183 NAD(P) binding site [chemical binding]; other site 1193292010184 catalytic residues [active] 1193292010185 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1193292010186 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1193292010187 transcriptional activator TtdR; Provisional; Region: PRK09801 1193292010188 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292010189 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1193292010190 putative effector binding pocket; other site 1193292010191 putative dimerization interface [polypeptide binding]; other site 1193292010192 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1193292010193 tartrate dehydrogenase; Region: TTC; TIGR02089 1193292010194 putative transporter; Provisional; Region: PRK09950 1193292010195 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1193292010196 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1193292010197 [2Fe-2S] cluster binding site [ion binding]; other site 1193292010198 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 1193292010199 putative alpha subunit interface [polypeptide binding]; other site 1193292010200 putative active site [active] 1193292010201 putative substrate binding site [chemical binding]; other site 1193292010202 Fe binding site [ion binding]; other site 1193292010203 succinic semialdehyde dehydrogenase; Region: PLN02278 1193292010204 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1193292010205 tetramerization interface [polypeptide binding]; other site 1193292010206 NAD(P) binding site [chemical binding]; other site 1193292010207 catalytic residues [active] 1193292010208 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1193292010209 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1193292010210 FMN-binding pocket [chemical binding]; other site 1193292010211 flavin binding motif; other site 1193292010212 phosphate binding motif [ion binding]; other site 1193292010213 beta-alpha-beta structure motif; other site 1193292010214 NAD binding pocket [chemical binding]; other site 1193292010215 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292010216 catalytic loop [active] 1193292010217 iron binding site [ion binding]; other site 1193292010218 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 1193292010219 dimerization domain swap beta strand [polypeptide binding]; other site 1193292010220 regulatory protein interface [polypeptide binding]; other site 1193292010221 active site 1193292010222 regulatory phosphorylation site [posttranslational modification]; other site 1193292010223 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1193292010224 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1193292010225 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1193292010226 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1193292010227 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 1193292010228 active site 1193292010229 phosphorylation site [posttranslational modification] 1193292010230 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 1193292010231 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1193292010232 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 1193292010233 active site 1193292010234 P-loop; other site 1193292010235 phosphorylation site [posttranslational modification] 1193292010236 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 1193292010237 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1193292010238 dimer interface [polypeptide binding]; other site 1193292010239 active site 1193292010240 glycine loop; other site 1193292010241 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 1193292010242 FeS/SAM binding site; other site 1193292010243 pyruvate formate lyase II activase; Provisional; Region: PRK10076 1193292010244 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 1193292010245 active site 1193292010246 P-loop; other site 1193292010247 phosphorylation site [posttranslational modification] 1193292010248 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1193292010249 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292010250 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292010251 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292010252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292010253 metal binding site [ion binding]; metal-binding site 1193292010254 active site 1193292010255 I-site; other site 1193292010256 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1193292010257 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1193292010258 Walker A/P-loop; other site 1193292010259 ATP binding site [chemical binding]; other site 1193292010260 Q-loop/lid; other site 1193292010261 ABC transporter signature motif; other site 1193292010262 Walker B; other site 1193292010263 D-loop; other site 1193292010264 H-loop/switch region; other site 1193292010265 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1193292010266 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 1193292010267 dimer interface [polypeptide binding]; other site 1193292010268 conserved gate region; other site 1193292010269 ABC-ATPase subunit interface; other site 1193292010270 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1193292010271 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 1193292010272 dimer interface [polypeptide binding]; other site 1193292010273 conserved gate region; other site 1193292010274 putative PBP binding loops; other site 1193292010275 ABC-ATPase subunit interface; other site 1193292010276 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1193292010277 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1193292010278 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1193292010279 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292010280 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1193292010281 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1193292010282 anti sigma factor interaction site; other site 1193292010283 regulatory phosphorylation site [posttranslational modification]; other site 1193292010284 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 1193292010285 homodimer interface [polypeptide binding]; other site 1193292010286 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1193292010287 active site pocket [active] 1193292010288 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1193292010289 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1193292010290 peptide binding site [polypeptide binding]; other site 1193292010291 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1193292010292 YccA-like proteins; Region: YccA_like; cd10433 1193292010293 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1193292010294 sulfur transfer protein TusE; Provisional; Region: PRK11508 1193292010295 acylphosphatase; Provisional; Region: PRK14426 1193292010296 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292010297 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292010298 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1193292010299 substrate binding site [chemical binding]; other site 1193292010300 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1193292010301 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1193292010302 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1193292010303 putative RNA binding site [nucleotide binding]; other site 1193292010304 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 1193292010305 S-adenosylmethionine binding site [chemical binding]; other site 1193292010306 heat shock protein HspQ; Provisional; Region: PRK14129 1193292010307 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1193292010308 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1193292010309 active site 1193292010310 dimer interfaces [polypeptide binding]; other site 1193292010311 catalytic residues [active] 1193292010312 DNA helicase IV; Provisional; Region: helD; PRK11054 1193292010313 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 1193292010314 Part of AAA domain; Region: AAA_19; pfam13245 1193292010315 Family description; Region: UvrD_C_2; pfam13538 1193292010316 Predicted membrane protein [Function unknown]; Region: COG3304 1193292010317 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1193292010318 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1193292010319 TIGR01666 family membrane protein; Region: YCCS 1193292010320 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1193292010321 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1193292010322 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1193292010323 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1193292010324 SOS cell division inhibitor; Provisional; Region: PRK10595 1193292010325 outer membrane protein A; Reviewed; Region: PRK10808 1193292010326 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1193292010327 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1193292010328 ligand binding site [chemical binding]; other site 1193292010329 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 1193292010330 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1193292010331 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1193292010332 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1193292010333 active site 1 [active] 1193292010334 dimer interface [polypeptide binding]; other site 1193292010335 active site 2 [active] 1193292010336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1193292010337 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1193292010338 paraquat-inducible protein B; Provisional; Region: PRK10807 1193292010339 mce related protein; Region: MCE; pfam02470 1193292010340 mce related protein; Region: MCE; pfam02470 1193292010341 mce related protein; Region: MCE; pfam02470 1193292010342 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 1193292010343 Paraquat-inducible protein A; Region: PqiA; pfam04403 1193292010344 Paraquat-inducible protein A; Region: PqiA; pfam04403 1193292010345 ABC transporter ATPase component; Reviewed; Region: PRK11147 1193292010346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292010347 Walker A/P-loop; other site 1193292010348 ATP binding site [chemical binding]; other site 1193292010349 Q-loop/lid; other site 1193292010350 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292010351 ABC transporter; Region: ABC_tran_2; pfam12848 1193292010352 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292010353 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1193292010354 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1193292010355 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 1193292010356 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 1193292010357 S-adenosylmethionine binding site [chemical binding]; other site 1193292010358 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1193292010359 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1193292010360 MOSC domain; Region: MOSC; pfam03473 1193292010361 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1193292010362 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292010363 catalytic loop [active] 1193292010364 iron binding site [ion binding]; other site 1193292010365 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 1193292010366 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1193292010367 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 1193292010368 quinone interaction residues [chemical binding]; other site 1193292010369 active site 1193292010370 catalytic residues [active] 1193292010371 FMN binding site [chemical binding]; other site 1193292010372 substrate binding site [chemical binding]; other site 1193292010373 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1193292010374 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1193292010375 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1193292010376 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 1193292010377 substrate binding pocket [chemical binding]; other site 1193292010378 membrane-bound complex binding site; other site 1193292010379 hinge residues; other site 1193292010380 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1193292010381 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1193292010382 active site 1193292010383 dimer interface [polypeptide binding]; other site 1193292010384 non-prolyl cis peptide bond; other site 1193292010385 insertion regions; other site 1193292010386 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1193292010387 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 1193292010388 dimer interface [polypeptide binding]; other site 1193292010389 conserved gate region; other site 1193292010390 putative PBP binding loops; other site 1193292010391 ABC-ATPase subunit interface; other site 1193292010392 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1193292010393 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1193292010394 Walker A/P-loop; other site 1193292010395 ATP binding site [chemical binding]; other site 1193292010396 Q-loop/lid; other site 1193292010397 ABC transporter signature motif; other site 1193292010398 Walker B; other site 1193292010399 D-loop; other site 1193292010400 H-loop/switch region; other site 1193292010401 aminopeptidase N; Provisional; Region: pepN; PRK14015 1193292010402 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1193292010403 active site 1193292010404 Zn binding site [ion binding]; other site 1193292010405 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1193292010406 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. 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; Region: PncB_like; cd01401 1193292010407 active site 1193292010408 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1193292010409 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1193292010410 metal binding site [ion binding]; metal-binding site 1193292010411 putative dimer interface [polypeptide binding]; other site 1193292010412 allantoate amidohydrolase; Reviewed; Region: PRK12893 1193292010413 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1193292010414 active site 1193292010415 metal binding site [ion binding]; metal-binding site 1193292010416 dimer interface [polypeptide binding]; other site 1193292010417 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1193292010418 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1193292010419 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1193292010420 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 1193292010421 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292010422 catalytic residue [active] 1193292010423 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1193292010424 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 1193292010425 putative DNA binding site [nucleotide binding]; other site 1193292010426 putative Zn2+ binding site [ion binding]; other site 1193292010427 AsnC family; Region: AsnC_trans_reg; pfam01037 1193292010428 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1193292010429 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1193292010430 putative anticodon binding site; other site 1193292010431 putative dimer interface [polypeptide binding]; other site 1193292010432 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1193292010433 homodimer interface [polypeptide binding]; other site 1193292010434 motif 1; other site 1193292010435 motif 2; other site 1193292010436 active site 1193292010437 motif 3; other site 1193292010438 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1193292010439 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1193292010440 eyelet of channel; other site 1193292010441 trimer interface [polypeptide binding]; other site 1193292010442 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1193292010443 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 1193292010444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292010445 homodimer interface [polypeptide binding]; other site 1193292010446 catalytic residue [active] 1193292010447 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1193292010448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1193292010449 Peptidase M15; Region: Peptidase_M15_3; cl01194 1193292010450 murein L,D-transpeptidase; Provisional; Region: PRK10594 1193292010451 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1193292010452 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1193292010453 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1193292010454 cell division protein MukB; Provisional; Region: mukB; PRK04863 1193292010455 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1193292010456 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1193292010457 condesin subunit E; Provisional; Region: PRK05256 1193292010458 condesin subunit F; Provisional; Region: PRK05260 1193292010459 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1193292010460 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 1193292010461 S-adenosylmethionine binding site [chemical binding]; other site 1193292010462 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1193292010463 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 1193292010464 putative active site [active] 1193292010465 hypothetical protein; Provisional; Region: PRK10593 1193292010466 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1193292010467 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1193292010468 Ligand binding site; other site 1193292010469 oligomer interface; other site 1193292010470 Trm112p-like protein; Region: Trm112p; cl01066 1193292010471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1193292010472 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1193292010473 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1193292010474 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1193292010475 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1193292010476 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1193292010477 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1193292010478 Walker A/P-loop; other site 1193292010479 ATP binding site [chemical binding]; other site 1193292010480 Q-loop/lid; other site 1193292010481 ABC transporter signature motif; other site 1193292010482 Walker B; other site 1193292010483 D-loop; other site 1193292010484 H-loop/switch region; other site 1193292010485 ComEC family competence protein; Provisional; Region: PRK11539 1193292010486 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1193292010487 Competence protein; Region: Competence; pfam03772 1193292010488 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1193292010489 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1193292010490 IHF dimer interface [polypeptide binding]; other site 1193292010491 IHF - DNA interface [nucleotide binding]; other site 1193292010492 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1193292010493 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 1193292010494 RNA binding site [nucleotide binding]; other site 1193292010495 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1193292010496 RNA binding site [nucleotide binding]; other site 1193292010497 S1_RPS1_repeat_ec4: 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_ec4; cd05689 1193292010498 RNA binding site [nucleotide binding]; other site 1193292010499 S1_RPS1_repeat_ec5: 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_ec5; cd05690 1193292010500 RNA binding site [nucleotide binding]; other site 1193292010501 S1_RPS1_repeat_ec6: 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_ec6; cd05691 1193292010502 RNA binding site [nucleotide binding]; other site 1193292010503 cytidylate kinase; Provisional; Region: cmk; PRK00023 1193292010504 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 1193292010505 CMP-binding site; other site 1193292010506 The sites determining sugar specificity; other site 1193292010507 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1193292010508 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 1193292010509 hinge; other site 1193292010510 active site 1193292010511 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1193292010512 homodimer interface [polypeptide binding]; other site 1193292010513 substrate-cofactor binding pocket; other site 1193292010514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292010515 catalytic residue [active] 1193292010516 Predicted membrane protein [Function unknown]; Region: COG2323 1193292010517 uncharacterized domain; Region: TIGR00702 1193292010518 YcaO-like family; Region: YcaO; pfam02624 1193292010519 formate transporter; Provisional; Region: PRK10805 1193292010520 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1193292010521 Pyruvate formate lyase 1; Region: PFL1; cd01678 1193292010522 coenzyme A binding site [chemical binding]; other site 1193292010523 active site 1193292010524 catalytic residues [active] 1193292010525 glycine loop; other site 1193292010526 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1193292010527 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 1193292010528 FeS/SAM binding site; other site 1193292010529 putative MFS family transporter protein; Provisional; Region: PRK03633 1193292010530 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 1193292010531 putative substrate translocation pore; other site 1193292010532 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 1193292010533 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1193292010534 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1193292010535 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 1193292010536 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1193292010537 putative [Fe4-S4] binding site [ion binding]; other site 1193292010538 putative molybdopterin cofactor binding site [chemical binding]; other site 1193292010539 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1193292010540 putative molybdopterin cofactor binding site; other site 1193292010541 seryl-tRNA synthetase; Provisional; Region: PRK05431 1193292010542 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1193292010543 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 1193292010544 dimer interface [polypeptide binding]; other site 1193292010545 active site 1193292010546 motif 1; other site 1193292010547 motif 2; other site 1193292010548 motif 3; other site 1193292010549 recombination factor protein RarA; Reviewed; Region: PRK13342 1193292010550 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 1193292010551 Walker A motif; other site 1193292010552 ATP binding site [chemical binding]; other site 1193292010553 Walker B motif; other site 1193292010554 arginine finger; other site 1193292010555 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1193292010556 periplasmic chaperone LolA; Region: lolA; TIGR00547 1193292010557 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1193292010558 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1193292010559 DNA translocase FtsK; Provisional; Region: PRK10263 1193292010560 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1193292010561 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1193292010562 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1193292010563 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 1193292010564 putative DNA binding site [nucleotide binding]; other site 1193292010565 putative Zn2+ binding site [ion binding]; other site 1193292010566 AsnC family; Region: AsnC_trans_reg; pfam01037 1193292010567 thioredoxin reductase; Provisional; Region: PRK10262 1193292010568 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292010569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292010570 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1193292010571 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1193292010572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292010573 Walker A/P-loop; other site 1193292010574 ATP binding site [chemical binding]; other site 1193292010575 Q-loop/lid; other site 1193292010576 ABC transporter signature motif; other site 1193292010577 Walker B; other site 1193292010578 D-loop; other site 1193292010579 H-loop/switch region; other site 1193292010580 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1193292010581 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292010582 Walker A/P-loop; other site 1193292010583 ATP binding site [chemical binding]; other site 1193292010584 Q-loop/lid; other site 1193292010585 ABC transporter signature motif; other site 1193292010586 Walker B; other site 1193292010587 D-loop; other site 1193292010588 H-loop/switch region; other site 1193292010589 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1193292010590 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 1193292010591 rRNA binding site [nucleotide binding]; other site 1193292010592 predicted 30S ribosome binding site; other site 1193292010593 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1193292010594 Clp amino terminal domain; Region: Clp_N; pfam02861 1193292010595 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 1193292010596 Walker A motif; other site 1193292010597 ATP binding site [chemical binding]; other site 1193292010598 Walker B motif; other site 1193292010599 arginine finger; other site 1193292010600 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 1193292010601 Walker A motif; other site 1193292010602 ATP binding site [chemical binding]; other site 1193292010603 Walker B motif; other site 1193292010604 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1193292010605 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1193292010606 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 1193292010607 DNA-binding site [nucleotide binding]; DNA binding site 1193292010608 RNA-binding motif; other site 1193292010609 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1193292010610 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1193292010611 Walker A/P-loop; other site 1193292010612 ATP binding site [chemical binding]; other site 1193292010613 Q-loop/lid; other site 1193292010614 ABC transporter signature motif; other site 1193292010615 Walker B; other site 1193292010616 D-loop; other site 1193292010617 H-loop/switch region; other site 1193292010618 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1193292010619 FtsX-like permease family; Region: FtsX; pfam02687 1193292010620 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1193292010621 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292010622 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292010623 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1193292010624 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1193292010625 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 1193292010626 putative active site [active] 1193292010627 putative metal-binding site [ion binding]; other site 1193292010628 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1193292010629 amphipathic channel; other site 1193292010630 Asn-Pro-Ala signature motifs; other site 1193292010631 Predicted membrane protein [Function unknown]; Region: COG2431 1193292010632 hybrid cluster protein; Provisional; Region: PRK05290 1193292010633 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1193292010634 ACS interaction site; other site 1193292010635 CODH interaction site; other site 1193292010636 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1193292010637 hybrid metal cluster; other site 1193292010638 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 1193292010639 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1193292010640 FAD binding pocket [chemical binding]; other site 1193292010641 FAD binding motif [chemical binding]; other site 1193292010642 phosphate binding motif [ion binding]; other site 1193292010643 beta-alpha-beta structure motif; other site 1193292010644 NAD binding pocket [chemical binding]; other site 1193292010645 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292010646 catalytic loop [active] 1193292010647 iron binding site [ion binding]; other site 1193292010648 DoxX; Region: DoxX; pfam07681 1193292010649 pyruvate dehydrogenase; Provisional; Region: PRK09124 1193292010650 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1193292010651 PYR/PP interface [polypeptide binding]; other site 1193292010652 dimer interface [polypeptide binding]; other site 1193292010653 tetramer interface [polypeptide binding]; other site 1193292010654 TPP binding site [chemical binding]; other site 1193292010655 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1193292010656 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 1193292010657 TPP-binding site [chemical binding]; other site 1193292010658 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1193292010659 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1193292010660 tetramer interface [polypeptide binding]; other site 1193292010661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292010662 catalytic residue [active] 1193292010663 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 1193292010664 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1193292010665 putative NAD(P) binding site [chemical binding]; other site 1193292010666 putative active site [active] 1193292010667 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1193292010668 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1193292010669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292010670 NAD(P) binding site [chemical binding]; other site 1193292010671 active site 1193292010672 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1193292010673 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 1193292010674 amidase catalytic site [active] 1193292010675 Zn binding residues [ion binding]; other site 1193292010676 substrate binding site [chemical binding]; other site 1193292010677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292010678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292010679 metal binding site [ion binding]; metal-binding site 1193292010680 active site 1193292010681 I-site; other site 1193292010682 putative lipoprotein; Provisional; Region: PRK10533 1193292010683 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1193292010684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292010685 Walker A/P-loop; other site 1193292010686 ATP binding site [chemical binding]; other site 1193292010687 Q-loop/lid; other site 1193292010688 ABC transporter signature motif; other site 1193292010689 Walker B; other site 1193292010690 D-loop; other site 1193292010691 H-loop/switch region; other site 1193292010692 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1193292010693 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 1193292010694 substrate binding pocket [chemical binding]; other site 1193292010695 membrane-bound complex binding site; other site 1193292010696 hinge residues; other site 1193292010697 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292010698 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 1193292010699 dimer interface [polypeptide binding]; other site 1193292010700 conserved gate region; other site 1193292010701 putative PBP binding loops; other site 1193292010702 ABC-ATPase subunit interface; other site 1193292010703 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292010704 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 1193292010705 dimer interface [polypeptide binding]; other site 1193292010706 conserved gate region; other site 1193292010707 putative PBP binding loops; other site 1193292010708 ABC-ATPase subunit interface; other site 1193292010709 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1193292010710 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 1193292010711 dimer interface [polypeptide binding]; other site 1193292010712 phosphorylation site [posttranslational modification] 1193292010713 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 1193292010714 ATP binding site [chemical binding]; other site 1193292010715 Mg2+ binding site [ion binding]; other site 1193292010716 G-X-G motif; other site 1193292010717 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1193292010718 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 1193292010719 active site 1193292010720 phosphorylation site [posttranslational modification] 1193292010721 intermolecular recognition site; other site 1193292010722 dimerization interface [polypeptide binding]; other site 1193292010723 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 1193292010724 DNA binding site [nucleotide binding] 1193292010725 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 1193292010726 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 1193292010727 S-adenosylmethionine binding site [chemical binding]; other site 1193292010728 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 1193292010729 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1193292010730 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 1193292010731 dimer interface [polypeptide binding]; other site 1193292010732 conserved gate region; other site 1193292010733 putative PBP binding loops; other site 1193292010734 ABC-ATPase subunit interface; other site 1193292010735 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1193292010736 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 1193292010737 dimer interface [polypeptide binding]; other site 1193292010738 conserved gate region; other site 1193292010739 putative PBP binding loops; other site 1193292010740 ABC-ATPase subunit interface; other site 1193292010741 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1193292010742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292010743 Walker A/P-loop; other site 1193292010744 ATP binding site [chemical binding]; other site 1193292010745 Q-loop/lid; other site 1193292010746 ABC transporter signature motif; other site 1193292010747 Walker B; other site 1193292010748 D-loop; other site 1193292010749 H-loop/switch region; other site 1193292010750 TOBE domain; Region: TOBE_2; pfam08402 1193292010751 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1193292010752 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1193292010753 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1193292010754 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1193292010755 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1193292010756 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1193292010757 dimer interface [polypeptide binding]; other site 1193292010758 FMN binding site [chemical binding]; other site 1193292010759 NADPH bind site [chemical binding]; other site 1193292010760 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 1193292010761 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 1193292010762 GSH binding site [chemical binding]; other site 1193292010763 catalytic residues [active] 1193292010764 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 1193292010765 putative transporter; Provisional; Region: PRK04972 1193292010766 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 1193292010767 TrkA-C domain; Region: TrkA_C; pfam02080 1193292010768 TrkA-C domain; Region: TrkA_C; pfam02080 1193292010769 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1193292010770 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1193292010771 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292010772 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1193292010773 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 1193292010774 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292010775 putative substrate translocation pore; other site 1193292010776 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1193292010777 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 1193292010778 active site 1193292010779 motif I; other site 1193292010780 motif II; other site 1193292010781 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 1193292010782 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1193292010783 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1193292010784 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 1193292010785 putative substrate translocation pore; other site 1193292010786 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 1193292010787 active site 1193292010788 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1193292010789 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1193292010790 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292010791 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 1193292010792 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1193292010793 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1193292010794 glutathione S-transferase; Region: PLN02395 1193292010795 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1193292010796 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1193292010797 putative N-terminal domain interface [polypeptide binding]; other site 1193292010798 putative dimer interface [polypeptide binding]; other site 1193292010799 putative substrate binding pocket (H-site) [chemical binding]; other site 1193292010800 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1193292010801 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1193292010802 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 1193292010803 galactoside permease; Reviewed; Region: lacY; PRK09528 1193292010804 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 1193292010805 putative substrate translocation pore; other site 1193292010806 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1193292010807 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1193292010808 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 1193292010809 FeS/SAM binding site; other site 1193292010810 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1193292010811 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1193292010812 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 1193292010813 dimer interface [polypeptide binding]; other site 1193292010814 conserved gate region; other site 1193292010815 putative PBP binding loops; other site 1193292010816 ABC-ATPase subunit interface; other site 1193292010817 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1193292010818 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 1193292010819 dimer interface [polypeptide binding]; other site 1193292010820 conserved gate region; other site 1193292010821 putative PBP binding loops; other site 1193292010822 ABC-ATPase subunit interface; other site 1193292010823 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1193292010824 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 1193292010825 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1193292010826 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292010827 Walker A/P-loop; other site 1193292010828 ATP binding site [chemical binding]; other site 1193292010829 Q-loop/lid; other site 1193292010830 ABC transporter signature motif; other site 1193292010831 Walker B; other site 1193292010832 D-loop; other site 1193292010833 H-loop/switch region; other site 1193292010834 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292010835 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292010836 Walker A/P-loop; other site 1193292010837 ATP binding site [chemical binding]; other site 1193292010838 Q-loop/lid; other site 1193292010839 ABC transporter signature motif; other site 1193292010840 Walker B; other site 1193292010841 D-loop; other site 1193292010842 H-loop/switch region; other site 1193292010843 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1193292010844 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1193292010845 catalytic nucleophile [active] 1193292010846 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1193292010847 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 1193292010848 dimer interface [polypeptide binding]; other site 1193292010849 putative functional site; other site 1193292010850 putative MPT binding site; other site 1193292010851 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1193292010852 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1193292010853 ATP binding site [chemical binding]; other site 1193292010854 substrate interface [chemical binding]; other site 1193292010855 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1193292010856 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 1193292010857 FeS/SAM binding site; other site 1193292010858 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1193292010859 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1193292010860 dimer interface [polypeptide binding]; other site 1193292010861 active site 1193292010862 glycine loop; other site 1193292010863 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1193292010864 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 1193292010865 active site 1193292010866 motif I; other site 1193292010867 motif II; other site 1193292010868 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 1193292010869 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 1193292010870 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292010871 DNA binding site [nucleotide binding] 1193292010872 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292010873 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1193292010874 ligand binding site [chemical binding]; other site 1193292010875 dimerization interface [polypeptide binding]; other site 1193292010876 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 1193292010877 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292010878 putative substrate translocation pore; other site 1193292010879 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1193292010880 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1193292010881 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 1193292010882 putative active site [active] 1193292010883 putative catalytic site [active] 1193292010884 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1193292010885 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292010886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292010887 Walker A/P-loop; other site 1193292010888 ATP binding site [chemical binding]; other site 1193292010889 Q-loop/lid; other site 1193292010890 ABC transporter signature motif; other site 1193292010891 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292010892 Walker B; other site 1193292010893 D-loop; other site 1193292010894 ABC transporter; Region: ABC_tran_2; pfam12848 1193292010895 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292010896 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1193292010897 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1193292010898 L,D-transpeptidase; Provisional; Region: PRK10260 1193292010899 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1193292010900 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1193292010901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292010902 DNA-binding site [nucleotide binding]; DNA binding site 1193292010903 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1193292010904 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1193292010905 beta-galactosidase; Region: BGL; TIGR03356 1193292010906 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1193292010907 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 1193292010908 transmembrane helices; other site 1193292010909 manganese transport regulator MntR; Provisional; Region: PRK11050 1193292010910 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1193292010911 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1193292010912 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1193292010913 Sulfatase; Region: Sulfatase; pfam00884 1193292010914 outer membrane protein X; Provisional; Region: ompX; PRK09408 1193292010915 threonine and homoserine efflux system; Provisional; Region: PRK10532 1193292010916 EamA-like transporter family; Region: EamA; pfam00892 1193292010917 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1193292010918 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1193292010919 dimerization interface [polypeptide binding]; other site 1193292010920 DPS ferroxidase diiron center [ion binding]; other site 1193292010921 ion pore; other site 1193292010922 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1193292010923 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 1193292010924 substrate binding pocket [chemical binding]; other site 1193292010925 membrane-bound complex binding site; other site 1193292010926 hinge residues; other site 1193292010927 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292010928 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 1193292010929 dimer interface [polypeptide binding]; other site 1193292010930 conserved gate region; other site 1193292010931 putative PBP binding loops; other site 1193292010932 ABC-ATPase subunit interface; other site 1193292010933 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1193292010934 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292010935 Walker A/P-loop; other site 1193292010936 ATP binding site [chemical binding]; other site 1193292010937 Q-loop/lid; other site 1193292010938 ABC transporter signature motif; other site 1193292010939 Walker B; other site 1193292010940 D-loop; other site 1193292010941 H-loop/switch region; other site 1193292010942 putative mechanosensitive channel protein; Provisional; Region: PRK11465 1193292010943 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1193292010944 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1193292010945 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 1193292010946 S-adenosylmethionine binding site [chemical binding]; other site 1193292010947 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1193292010948 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1193292010949 hypothetical protein; Provisional; Region: PRK11019 1193292010950 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1193292010951 glycosyl transferase family protein; Provisional; Region: PRK08136 1193292010952 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1193292010953 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1193292010954 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 1193292010955 DEAD_2; Region: DEAD_2; pfam06733 1193292010956 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1193292010957 helicase 45; Provisional; Region: PTZ00424 1193292010958 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 1193292010959 ATP binding site [chemical binding]; other site 1193292010960 Mg++ binding site [ion binding]; other site 1193292010961 motif III; other site 1193292010962 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 1193292010963 nucleotide binding region [chemical binding]; other site 1193292010964 ATP-binding site [chemical binding]; other site 1193292010965 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1193292010966 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 1193292010967 PYR/PP interface [polypeptide binding]; other site 1193292010968 dimer interface [polypeptide binding]; other site 1193292010969 TPP binding site [chemical binding]; other site 1193292010970 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1193292010971 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 1193292010972 TPP-binding site [chemical binding]; other site 1193292010973 dimer interface [polypeptide binding]; other site 1193292010974 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1193292010975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292010976 NAD(P) binding site [chemical binding]; other site 1193292010977 active site 1193292010978 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 1193292010979 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292010980 putative substrate translocation pore; other site 1193292010981 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 1193292010982 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1193292010983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292010984 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1193292010985 dimerization interface [polypeptide binding]; other site 1193292010986 substrate binding pocket [chemical binding]; other site 1193292010987 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1193292010988 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292010989 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1193292010990 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1193292010991 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292010992 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292010993 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1193292010994 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1193292010995 Walker A/P-loop; other site 1193292010996 ATP binding site [chemical binding]; other site 1193292010997 Q-loop/lid; other site 1193292010998 ABC transporter signature motif; other site 1193292010999 Walker B; other site 1193292011000 D-loop; other site 1193292011001 H-loop/switch region; other site 1193292011002 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1193292011003 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1193292011004 Walker A/P-loop; other site 1193292011005 ATP binding site [chemical binding]; other site 1193292011006 Q-loop/lid; other site 1193292011007 ABC transporter signature motif; other site 1193292011008 Walker B; other site 1193292011009 D-loop; other site 1193292011010 H-loop/switch region; other site 1193292011011 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1193292011012 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1193292011013 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1193292011014 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1193292011015 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 1193292011016 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1193292011017 putative catalytic site [active] 1193292011018 putative metal binding site [ion binding]; other site 1193292011019 putative phosphate binding site [ion binding]; other site 1193292011020 cardiolipin synthase 2; Provisional; Region: PRK11263 1193292011021 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1193292011022 putative active site [active] 1193292011023 catalytic site [active] 1193292011024 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1193292011025 putative active site [active] 1193292011026 catalytic site [active] 1193292011027 Predicted integral membrane protein [Function unknown]; Region: COG0392 1193292011028 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1193292011029 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1193292011030 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1193292011031 MoaE homodimer interface [polypeptide binding]; other site 1193292011032 MoaD interaction [polypeptide binding]; other site 1193292011033 active site residues [active] 1193292011034 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1193292011035 MoaE interaction surface [polypeptide binding]; other site 1193292011036 MoeB interaction surface [polypeptide binding]; other site 1193292011037 thiocarboxylated glycine; other site 1193292011038 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1193292011039 trimer interface [polypeptide binding]; other site 1193292011040 dimer interface [polypeptide binding]; other site 1193292011041 putative active site [active] 1193292011042 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 1193292011043 MPT binding site; other site 1193292011044 trimer interface [polypeptide binding]; other site 1193292011045 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1193292011046 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 1193292011047 FeS/SAM binding site; other site 1193292011048 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1193292011049 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1193292011050 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1193292011051 phosphate binding site [ion binding]; other site 1193292011052 putative substrate binding pocket [chemical binding]; other site 1193292011053 dimer interface [polypeptide binding]; other site 1193292011054 putative metal dependent hydrolase; Provisional; Region: PRK11598 1193292011055 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1193292011056 Sulfatase; Region: Sulfatase; pfam00884 1193292011057 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1193292011058 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 1193292011059 active site 1193292011060 phosphorylation site [posttranslational modification] 1193292011061 intermolecular recognition site; other site 1193292011062 dimerization interface [polypeptide binding]; other site 1193292011063 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 1193292011064 DNA binding site [nucleotide binding] 1193292011065 sensor protein BasS/PmrB; Provisional; Region: PRK10755 1193292011066 HAMP domain; Region: HAMP; pfam00672 1193292011067 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 1193292011068 ATP binding site [chemical binding]; other site 1193292011069 Mg2+ binding site [ion binding]; other site 1193292011070 G-X-G motif; other site 1193292011071 excinuclease ABC subunit B; Provisional; Region: PRK05298 1193292011072 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 1193292011073 ATP binding site [chemical binding]; other site 1193292011074 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 1193292011075 nucleotide binding region [chemical binding]; other site 1193292011076 ATP-binding site [chemical binding]; other site 1193292011077 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1193292011078 UvrB/uvrC motif; Region: UVR; pfam02151 1193292011079 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1193292011080 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1193292011081 Walker A/P-loop; other site 1193292011082 ATP binding site [chemical binding]; other site 1193292011083 Q-loop/lid; other site 1193292011084 ABC transporter signature motif; other site 1193292011085 Walker B; other site 1193292011086 D-loop; other site 1193292011087 H-loop/switch region; other site 1193292011088 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1193292011089 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 1193292011090 S-adenosylmethionine binding site [chemical binding]; other site 1193292011091 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1193292011092 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1193292011093 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292011094 catalytic residue [active] 1193292011095 biotin synthase; Provisional; Region: PRK15108 1193292011096 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 1193292011097 FeS/SAM binding site; other site 1193292011098 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1193292011099 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1193292011100 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 1193292011101 inhibitor-cofactor binding pocket; inhibition site 1193292011102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292011103 catalytic residue [active] 1193292011104 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1193292011105 substrate binding site [chemical binding]; other site 1193292011106 putative proline-specific permease; Provisional; Region: proY; PRK10580 1193292011107 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1193292011108 active sites [active] 1193292011109 tetramer interface [polypeptide binding]; other site 1193292011110 histidine utilization repressor; Provisional; Region: PRK14999 1193292011111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292011112 DNA-binding site [nucleotide binding]; DNA binding site 1193292011113 UTRA domain; Region: UTRA; pfam07702 1193292011114 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1193292011115 putative active site [active] 1193292011116 putative metal binding site [ion binding]; other site 1193292011117 imidazolonepropionase; Validated; Region: PRK09356 1193292011118 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1193292011119 active site 1193292011120 acyl-CoA thioesterase; Provisional; Region: PRK10531 1193292011121 putative pectinesterase; Region: PLN02432; cl01911 1193292011122 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1193292011123 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1193292011124 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1193292011125 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1193292011126 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 1193292011127 motif I; other site 1193292011128 motif II; other site 1193292011129 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1193292011130 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 1193292011131 Ligand Binding Site [chemical binding]; other site 1193292011132 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1193292011133 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292011134 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1193292011135 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1193292011136 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 1193292011137 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1193292011138 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 1193292011139 DNA binding residues [nucleotide binding] 1193292011140 dimerization interface [polypeptide binding]; other site 1193292011141 transcriptional regulator MirA; Provisional; Region: PRK15043 1193292011142 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 1193292011143 DNA binding residues [nucleotide binding] 1193292011144 Sensors of blue-light using FAD; Region: BLUF; smart01034 1193292011145 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292011146 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 1193292011147 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 1193292011148 6-phosphogluconolactonase; Provisional; Region: PRK11028 1193292011149 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1193292011150 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1193292011151 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 1193292011152 active site 1193292011153 motif I; other site 1193292011154 motif II; other site 1193292011155 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 1193292011156 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1193292011157 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292011158 Walker A/P-loop; other site 1193292011159 ATP binding site [chemical binding]; other site 1193292011160 Q-loop/lid; other site 1193292011161 ABC transporter signature motif; other site 1193292011162 Walker B; other site 1193292011163 D-loop; other site 1193292011164 H-loop/switch region; other site 1193292011165 TOBE domain; Region: TOBE; cl01440 1193292011166 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1193292011167 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 1193292011168 dimer interface [polypeptide binding]; other site 1193292011169 conserved gate region; other site 1193292011170 putative PBP binding loops; other site 1193292011171 ABC-ATPase subunit interface; other site 1193292011172 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1193292011173 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 1193292011174 substrate binding pocket [chemical binding]; other site 1193292011175 membrane-bound complex binding site; other site 1193292011176 hinge residues; other site 1193292011177 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 1193292011178 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1193292011179 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1193292011180 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1193292011181 TOBE domain; Region: TOBE; pfam03459 1193292011182 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1193292011183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292011184 Walker A/P-loop; other site 1193292011185 ATP binding site [chemical binding]; other site 1193292011186 Q-loop/lid; other site 1193292011187 ABC transporter signature motif; other site 1193292011188 Walker B; other site 1193292011189 D-loop; other site 1193292011190 H-loop/switch region; other site 1193292011191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292011192 Walker A/P-loop; other site 1193292011193 ATP binding site [chemical binding]; other site 1193292011194 Q-loop/lid; other site 1193292011195 ABC transporter signature motif; other site 1193292011196 Walker B; other site 1193292011197 D-loop; other site 1193292011198 H-loop/switch region; other site 1193292011199 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 1193292011200 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1193292011201 NAD binding site [chemical binding]; other site 1193292011202 homodimer interface [polypeptide binding]; other site 1193292011203 active site 1193292011204 substrate binding site [chemical binding]; other site 1193292011205 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1193292011206 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1193292011207 dimer interface [polypeptide binding]; other site 1193292011208 active site 1193292011209 galactokinase; Provisional; Region: PRK05101 1193292011210 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1193292011211 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1193292011212 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1193292011213 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1193292011214 active site 1193292011215 catalytic residues [active] 1193292011216 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 1193292011217 catalytic core [active] 1193292011218 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 1193292011219 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1193292011220 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1193292011221 YbgS-like protein; Region: YbgS; pfam13985 1193292011222 zinc transporter ZitB; Provisional; Region: PRK03557 1193292011223 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 1193292011224 quinolinate synthetase; Provisional; Region: PRK09375 1193292011225 tol-pal system protein YbgF; Provisional; Region: PRK10803 1193292011226 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1193292011227 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1193292011228 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1193292011229 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1193292011230 ligand binding site [chemical binding]; other site 1193292011231 translocation protein TolB; Provisional; Region: tolB; PRK03629 1193292011232 TolB amino-terminal domain; Region: TolB_N; pfam04052 1193292011233 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1193292011234 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1193292011235 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1193292011236 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1193292011237 TolA C-terminal; Region: TolA; pfam06519 1193292011238 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1193292011239 colicin uptake protein TolR; Provisional; Region: PRK11024 1193292011240 colicin uptake protein TolQ; Provisional; Region: PRK10801 1193292011241 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 1193292011242 active site 1193292011243 hypothetical protein; Provisional; Region: PRK10588 1193292011244 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 1193292011245 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 1193292011246 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1193292011247 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1193292011248 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1193292011249 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1193292011250 CoA binding domain; Region: CoA_binding; smart00881 1193292011251 CoA-ligase; Region: Ligase_CoA; pfam00549 1193292011252 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1193292011253 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1193292011254 CoA-ligase; Region: Ligase_CoA; pfam00549 1193292011255 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1193292011256 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1193292011257 E3 interaction surface; other site 1193292011258 lipoyl attachment site [posttranslational modification]; other site 1193292011259 e3 binding domain; Region: E3_binding; pfam02817 1193292011260 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1193292011261 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1193292011262 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 1193292011263 TPP-binding site [chemical binding]; other site 1193292011264 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1193292011265 dimer interface [polypeptide binding]; other site 1193292011266 PYR/PP interface [polypeptide binding]; other site 1193292011267 TPP binding site [chemical binding]; other site 1193292011268 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1193292011269 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1193292011270 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1193292011271 L-aspartate oxidase; Provisional; Region: PRK06175 1193292011272 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1193292011273 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 1193292011274 SdhC subunit interface [polypeptide binding]; other site 1193292011275 proximal heme binding site [chemical binding]; other site 1193292011276 cardiolipin binding site; other site 1193292011277 Iron-sulfur protein interface; other site 1193292011278 proximal quinone binding site [chemical binding]; other site 1193292011279 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1193292011280 SdhD (CybS) interface [polypeptide binding]; other site 1193292011281 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 1193292011282 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1193292011283 dimer interface [polypeptide binding]; other site 1193292011284 active site 1193292011285 citrylCoA binding site [chemical binding]; other site 1193292011286 NADH binding [chemical binding]; other site 1193292011287 cationic pore residues; other site 1193292011288 oxalacetate/citrate binding site [chemical binding]; other site 1193292011289 coenzyme A binding site [chemical binding]; other site 1193292011290 catalytic triad [active] 1193292011291 endonuclease VIII; Provisional; Region: PRK10445 1193292011292 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 1193292011293 DNA binding site [nucleotide binding] 1193292011294 catalytic residue [active] 1193292011295 putative catalytic residues [active] 1193292011296 H2TH interface [polypeptide binding]; other site 1193292011297 intercalation triad [nucleotide binding]; other site 1193292011298 substrate specificity determining residue; other site 1193292011299 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1193292011300 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1193292011301 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 1193292011302 putative substrate binding pocket [chemical binding]; other site 1193292011303 AC domain interface; other site 1193292011304 catalytic triad [active] 1193292011305 AB domain interface; other site 1193292011306 interchain disulfide; other site 1193292011307 Predicted membrane protein [Function unknown]; Region: COG3817 1193292011308 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1193292011309 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1193292011310 LamB/YcsF family protein; Provisional; Region: PRK05406 1193292011311 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1193292011312 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1193292011313 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1193292011314 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1193292011315 metal-binding protein; Provisional; Region: PRK10799 1193292011316 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1193292011317 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 1193292011318 putative substrate translocation pore; other site 1193292011319 POT family; Region: PTR2; pfam00854 1193292011320 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1193292011321 DNA photolyase; Region: DNA_photolyase; pfam00875 1193292011322 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 1193292011323 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1193292011324 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1193292011325 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1193292011326 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1193292011327 sensor protein KdpD; Provisional; Region: PRK10490 1193292011328 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1193292011329 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1193292011330 Ligand Binding Site [chemical binding]; other site 1193292011331 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1193292011332 GAF domain; Region: GAF_3; pfam13492 1193292011333 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 1193292011334 dimer interface [polypeptide binding]; other site 1193292011335 phosphorylation site [posttranslational modification] 1193292011336 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 1193292011337 ATP binding site [chemical binding]; other site 1193292011338 Mg2+ binding site [ion binding]; other site 1193292011339 G-X-G motif; other site 1193292011340 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1193292011341 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 1193292011342 active site 1193292011343 phosphorylation site [posttranslational modification] 1193292011344 intermolecular recognition site; other site 1193292011345 dimerization interface [polypeptide binding]; other site 1193292011346 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 1193292011347 DNA binding site [nucleotide binding] 1193292011348 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 1193292011349 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 1193292011350 active site 1193292011351 substrate binding site [chemical binding]; other site 1193292011352 metal binding site [ion binding]; metal-binding site 1193292011353 replication initiation regulator SeqA; Provisional; Region: PRK11187 1193292011354 acyl-CoA esterase; Provisional; Region: PRK10673 1193292011355 PGAP1-like protein; Region: PGAP1; pfam07819 1193292011356 LexA regulated protein; Provisional; Region: PRK11675 1193292011357 flavodoxin FldA; Validated; Region: PRK09267 1193292011358 ferric uptake regulator; Provisional; Region: fur; PRK09462 1193292011359 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1193292011360 metal binding site 2 [ion binding]; metal-binding site 1193292011361 putative DNA binding helix; other site 1193292011362 metal binding site 1 [ion binding]; metal-binding site 1193292011363 dimer interface [polypeptide binding]; other site 1193292011364 structural Zn2+ binding site [ion binding]; other site 1193292011365 citrate-proton symporter; Provisional; Region: PRK15075 1193292011366 YbfN-like lipoprotein; Region: YbfN; pfam13982 1193292011367 outer membrane porin, OprD family; Region: OprD; pfam03573 1193292011368 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1193292011369 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1193292011370 active site 1193292011371 HIGH motif; other site 1193292011372 nucleotide binding site [chemical binding]; other site 1193292011373 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1193292011374 KMSKS motif; other site 1193292011375 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1193292011376 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 1193292011377 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1193292011378 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 1193292011379 active site turn [active] 1193292011380 phosphorylation site [posttranslational modification] 1193292011381 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 1193292011382 HPr interaction site; other site 1193292011383 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1193292011384 active site 1193292011385 phosphorylation site [posttranslational modification] 1193292011386 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1193292011387 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 1193292011388 active site 1193292011389 trimer interface [polypeptide binding]; other site 1193292011390 allosteric site; other site 1193292011391 active site lid [active] 1193292011392 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1193292011393 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 1193292011394 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1193292011395 active site 1193292011396 dimer interface [polypeptide binding]; other site 1193292011397 MarR family; Region: MarR; pfam01047 1193292011398 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1193292011399 ROK family; Region: ROK; pfam00480 1193292011400 UMP phosphatase; Provisional; Region: PRK10444 1193292011401 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 1193292011402 active site 1193292011403 motif I; other site 1193292011404 motif II; other site 1193292011405 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 1193292011406 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1193292011407 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 1193292011408 active site 1193292011409 dimer interface [polypeptide binding]; other site 1193292011410 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 1193292011411 Ligand Binding Site [chemical binding]; other site 1193292011412 Molecular Tunnel; other site 1193292011413 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1193292011414 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1193292011415 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1193292011416 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1193292011417 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 1193292011418 FeS/SAM binding site; other site 1193292011419 TRAM domain; Region: TRAM; pfam01938 1193292011420 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1193292011421 PhoH-like protein; Region: PhoH; pfam02562 1193292011422 metal-binding heat shock protein; Provisional; Region: PRK00016 1193292011423 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 1193292011424 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 1193292011425 Transporter associated domain; Region: CorC_HlyC; smart01091 1193292011426 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1193292011427 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1193292011428 putative active site [active] 1193292011429 catalytic triad [active] 1193292011430 putative dimer interface [polypeptide binding]; other site 1193292011431 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1193292011432 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 1193292011433 substrate binding pocket [chemical binding]; other site 1193292011434 membrane-bound complex binding site; other site 1193292011435 hinge residues; other site 1193292011436 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292011437 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 1193292011438 dimer interface [polypeptide binding]; other site 1193292011439 conserved gate region; other site 1193292011440 putative PBP binding loops; other site 1193292011441 ABC-ATPase subunit interface; other site 1193292011442 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292011443 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 1193292011444 dimer interface [polypeptide binding]; other site 1193292011445 conserved gate region; other site 1193292011446 putative PBP binding loops; other site 1193292011447 ABC-ATPase subunit interface; other site 1193292011448 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292011449 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292011450 Walker A/P-loop; other site 1193292011451 ATP binding site [chemical binding]; other site 1193292011452 Q-loop/lid; other site 1193292011453 ABC transporter signature motif; other site 1193292011454 Walker B; other site 1193292011455 D-loop; other site 1193292011456 H-loop/switch region; other site 1193292011457 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1193292011458 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1193292011459 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1193292011460 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1193292011461 hypothetical protein; Provisional; Region: PRK11032 1193292011462 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1193292011463 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1193292011464 HIGH motif; other site 1193292011465 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1193292011466 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1193292011467 active site 1193292011468 KMSKS motif; other site 1193292011469 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1193292011470 tRNA binding surface [nucleotide binding]; other site 1193292011471 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1193292011472 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 1193292011473 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1193292011474 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1193292011475 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1193292011476 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1193292011477 active site 1193292011478 (T/H)XGH motif; other site 1193292011479 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 1193292011480 catalytic core [active] 1193292011481 ribosome-associated protein; Provisional; Region: PRK11538 1193292011482 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1193292011483 penicillin-binding protein 2; Provisional; Region: PRK10795 1193292011484 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1193292011485 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1193292011486 cell wall shape-determining protein; Provisional; Region: PRK10794 1193292011487 rare lipoprotein A; Provisional; Region: PRK10672 1193292011488 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1193292011489 Sporulation related domain; Region: SPOR; pfam05036 1193292011490 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1193292011491 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1193292011492 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1193292011493 hypothetical protein; Provisional; Region: PRK04998 1193292011494 lipoate-protein ligase B; Provisional; Region: PRK14342 1193292011495 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 1193292011496 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292011497 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1193292011498 substrate binding pocket [chemical binding]; other site 1193292011499 dimerization interface [polypeptide binding]; other site 1193292011500 lipoyl synthase; Provisional; Region: PRK05481 1193292011501 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 1193292011502 FeS/SAM binding site; other site 1193292011503 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 1193292011504 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1193292011505 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 1193292011506 putative active site [active] 1193292011507 catalytic triad [active] 1193292011508 putative dimer interface [polypeptide binding]; other site 1193292011509 chromosome condensation membrane protein; Provisional; Region: PRK14196 1193292011510 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 1193292011511 DNA-binding site [nucleotide binding]; DNA binding site 1193292011512 RNA-binding motif; other site 1193292011513 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 1193292011514 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 1193292011515 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1193292011516 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 1193292011517 B1 nucleotide binding pocket [chemical binding]; other site 1193292011518 B2 nucleotide binding pocket [chemical binding]; other site 1193292011519 CAS motifs; other site 1193292011520 active site 1193292011521 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1193292011522 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1193292011523 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 1193292011524 Ligand Binding Site [chemical binding]; other site 1193292011525 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1193292011526 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1193292011527 catalytic residue [active] 1193292011528 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1193292011529 catalytic residues [active] 1193292011530 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292011531 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292011532 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 1193292011533 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 1193292011534 dimer interface [polypeptide binding]; other site 1193292011535 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1193292011536 catalytic triad [active] 1193292011537 peroxidatic and resolving cysteines [active] 1193292011538 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1193292011539 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1193292011540 dimerization domain [polypeptide binding]; other site 1193292011541 dimer interface [polypeptide binding]; other site 1193292011542 catalytic residues [active] 1193292011543 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 1193292011544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292011545 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 1193292011546 dimerization interface [polypeptide binding]; other site 1193292011547 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 1193292011548 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1193292011549 Active Sites [active] 1193292011550 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1193292011551 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1193292011552 ParB-like nuclease domain; Region: ParBc; pfam02195 1193292011553 methionine aminotransferase; Validated; Region: PRK09082 1193292011554 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 1193292011555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292011556 homodimer interface [polypeptide binding]; other site 1193292011557 catalytic residue [active] 1193292011558 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 1193292011559 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 1193292011560 motif II; other site 1193292011561 ARD/ARD' family; Region: ARD; pfam03079 1193292011562 Cupin domain; Region: Cupin_2; cl17218 1193292011563 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1193292011564 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1193292011565 molybdopterin cofactor binding site [chemical binding]; other site 1193292011566 substrate binding site [chemical binding]; other site 1193292011567 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1193292011568 molybdopterin cofactor binding site; other site 1193292011569 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1193292011570 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1193292011571 putative ligand binding site [chemical binding]; other site 1193292011572 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1193292011573 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292011574 Walker A/P-loop; other site 1193292011575 ATP binding site [chemical binding]; other site 1193292011576 Q-loop/lid; other site 1193292011577 ABC transporter signature motif; other site 1193292011578 Walker B; other site 1193292011579 D-loop; other site 1193292011580 H-loop/switch region; other site 1193292011581 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292011582 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 1193292011583 TM-ABC transporter signature motif; other site 1193292011584 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292011585 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 1193292011586 TM-ABC transporter signature motif; other site 1193292011587 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292011588 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1193292011589 substrate binding site [chemical binding]; other site 1193292011590 ATP binding site [chemical binding]; other site 1193292011591 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1193292011592 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 1193292011593 putative ligand binding site [chemical binding]; other site 1193292011594 putative NAD binding site [chemical binding]; other site 1193292011595 catalytic site [active] 1193292011596 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1193292011597 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1193292011598 putative N- and C-terminal domain interface [polypeptide binding]; other site 1193292011599 putative active site [active] 1193292011600 MgATP binding site [chemical binding]; other site 1193292011601 catalytic site [active] 1193292011602 metal binding site [ion binding]; metal-binding site 1193292011603 putative xylulose binding site [chemical binding]; other site 1193292011604 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1193292011605 intersubunit interface [polypeptide binding]; other site 1193292011606 active site 1193292011607 Zn2+ binding site [ion binding]; other site 1193292011608 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1193292011609 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1193292011610 cytosine deaminase; Provisional; Region: PRK09230 1193292011611 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1193292011612 active site 1193292011613 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292011614 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292011615 DNA binding site [nucleotide binding] 1193292011616 domain linker motif; other site 1193292011617 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_2; cd06278 1193292011618 putative dimerization interface [polypeptide binding]; other site 1193292011619 putative ligand binding site [chemical binding]; other site 1193292011620 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1193292011621 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1193292011622 active site 1193292011623 dimerization interface [polypeptide binding]; other site 1193292011624 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1193292011625 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 1193292011626 putative substrate translocation pore; other site 1193292011627 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1193292011628 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1193292011629 catalytic core [active] 1193292011630 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1193292011631 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1193292011632 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1193292011633 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 1193292011634 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1193292011635 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1193292011636 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1193292011637 putative ligand binding site [chemical binding]; other site 1193292011638 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292011639 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 1193292011640 TM-ABC transporter signature motif; other site 1193292011641 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1193292011642 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292011643 Walker A/P-loop; other site 1193292011644 ATP binding site [chemical binding]; other site 1193292011645 Q-loop/lid; other site 1193292011646 ABC transporter signature motif; other site 1193292011647 Walker B; other site 1193292011648 D-loop; other site 1193292011649 H-loop/switch region; other site 1193292011650 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292011651 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1193292011652 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1193292011653 putative active site [active] 1193292011654 metal binding site [ion binding]; metal-binding site 1193292011655 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1193292011656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292011657 NAD(P) binding site [chemical binding]; other site 1193292011658 active site 1193292011659 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1193292011660 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1193292011661 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 1193292011662 salt bridge; other site 1193292011663 non-specific DNA binding site [nucleotide binding]; other site 1193292011664 sequence-specific DNA binding site [nucleotide binding]; other site 1193292011665 Uncharacterized small protein [Function unknown]; Region: COG2879 1193292011666 carbon starvation protein A; Provisional; Region: PRK15015 1193292011667 Carbon starvation protein CstA; Region: CstA; pfam02554 1193292011668 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1193292011669 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 1193292011670 CoenzymeA binding site [chemical binding]; other site 1193292011671 subunit interaction site [polypeptide binding]; other site 1193292011672 PHB binding site; other site 1193292011673 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1193292011674 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 1193292011675 putative NAD(P) binding site [chemical binding]; other site 1193292011676 active site 1193292011677 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1193292011678 hydrophobic substrate binding pocket; other site 1193292011679 Isochorismatase family; Region: Isochorismatase; pfam00857 1193292011680 active site 1193292011681 conserved cis-peptide bond; other site 1193292011682 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1193292011683 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1193292011684 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1193292011685 acyl-activating enzyme (AAE) consensus motif; other site 1193292011686 active site 1193292011687 AMP binding site [chemical binding]; other site 1193292011688 substrate binding site [chemical binding]; other site 1193292011689 isochorismate synthase EntC; Provisional; Region: PRK15016 1193292011690 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1193292011691 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 1193292011692 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 1193292011693 siderophore binding site; other site 1193292011694 enterobactin exporter EntS; Provisional; Region: PRK10489 1193292011695 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 1193292011696 putative substrate translocation pore; other site 1193292011697 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292011698 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 1193292011699 ABC-ATPase subunit interface; other site 1193292011700 dimer interface [polypeptide binding]; other site 1193292011701 putative PBP binding regions; other site 1193292011702 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1193292011703 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 1193292011704 ABC-ATPase subunit interface; other site 1193292011705 dimer interface [polypeptide binding]; other site 1193292011706 putative PBP binding regions; other site 1193292011707 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 1193292011708 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1193292011709 Walker A/P-loop; other site 1193292011710 ATP binding site [chemical binding]; other site 1193292011711 Q-loop/lid; other site 1193292011712 ABC transporter signature motif; other site 1193292011713 Walker B; other site 1193292011714 D-loop; other site 1193292011715 H-loop/switch region; other site 1193292011716 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1193292011717 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1193292011718 acyl-activating enzyme (AAE) consensus motif; other site 1193292011719 AMP binding site [chemical binding]; other site 1193292011720 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1193292011721 MbtH-like protein; Region: MbtH; cl01279 1193292011722 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 1193292011723 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1193292011724 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1193292011725 outer membrane receptor FepA; Provisional; Region: PRK13524 1193292011726 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292011727 N-terminal plug; other site 1193292011728 ligand-binding site [chemical binding]; other site 1193292011729 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 1193292011730 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1193292011731 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1193292011732 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 1193292011733 PYR/PP interface [polypeptide binding]; other site 1193292011734 dimer interface [polypeptide binding]; other site 1193292011735 TPP binding site [chemical binding]; other site 1193292011736 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1193292011737 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 1193292011738 TPP-binding site [chemical binding]; other site 1193292011739 dimer interface [polypeptide binding]; other site 1193292011740 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1193292011741 MarR family; Region: MarR_2; cl17246 1193292011742 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1193292011743 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1193292011744 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 1193292011745 N- and C-terminal domain interface [polypeptide binding]; other site 1193292011746 active site 1193292011747 MgATP binding site [chemical binding]; other site 1193292011748 catalytic site [active] 1193292011749 metal binding site [ion binding]; metal-binding site 1193292011750 putative homotetramer interface [polypeptide binding]; other site 1193292011751 putative homodimer interface [polypeptide binding]; other site 1193292011752 glycerol binding site [chemical binding]; other site 1193292011753 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1193292011754 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1193292011755 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 1193292011756 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1193292011757 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292011758 Walker A/P-loop; other site 1193292011759 ATP binding site [chemical binding]; other site 1193292011760 Q-loop/lid; other site 1193292011761 ABC transporter signature motif; other site 1193292011762 Walker B; other site 1193292011763 D-loop; other site 1193292011764 H-loop/switch region; other site 1193292011765 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292011766 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 1193292011767 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292011768 TM-ABC transporter signature motif; other site 1193292011769 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1193292011770 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1193292011771 NAD binding site [chemical binding]; other site 1193292011772 homotetramer interface [polypeptide binding]; other site 1193292011773 homodimer interface [polypeptide binding]; other site 1193292011774 active site 1193292011775 substrate binding site [chemical binding]; other site 1193292011776 short chain dehydrogenase; Provisional; Region: PRK06114 1193292011777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292011778 NAD(P) binding site [chemical binding]; other site 1193292011779 active site 1193292011780 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1193292011781 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1193292011782 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1193292011783 dimer interface [polypeptide binding]; other site 1193292011784 N-terminal domain interface [polypeptide binding]; other site 1193292011785 putative substrate binding pocket (H-site) [chemical binding]; other site 1193292011786 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1193292011787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292011788 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1193292011789 dimerization interface [polypeptide binding]; other site 1193292011790 substrate binding pocket [chemical binding]; other site 1193292011791 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1193292011792 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1193292011793 C-lysozyme inhibitor; Provisional; Region: PRK09993 1193292011794 choline transport protein BetT; Provisional; Region: PRK09928 1193292011795 transcriptional regulator BetI; Validated; Region: PRK00767 1193292011796 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292011797 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1193292011798 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1193292011799 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1193292011800 tetrameric interface [polypeptide binding]; other site 1193292011801 NAD binding site [chemical binding]; other site 1193292011802 catalytic residues [active] 1193292011803 choline dehydrogenase; Validated; Region: PRK02106 1193292011804 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1193292011805 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1193292011806 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1193292011807 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1193292011808 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_7; cd08512 1193292011809 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1193292011810 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 1193292011811 dimer interface [polypeptide binding]; other site 1193292011812 conserved gate region; other site 1193292011813 putative PBP binding loops; other site 1193292011814 ABC-ATPase subunit interface; other site 1193292011815 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1193292011816 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1193292011817 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 1193292011818 dimer interface [polypeptide binding]; other site 1193292011819 conserved gate region; other site 1193292011820 ABC-ATPase subunit interface; other site 1193292011821 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1193292011822 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292011823 Walker A/P-loop; other site 1193292011824 ATP binding site [chemical binding]; other site 1193292011825 Q-loop/lid; other site 1193292011826 ABC transporter signature motif; other site 1193292011827 Walker B; other site 1193292011828 D-loop; other site 1193292011829 H-loop/switch region; other site 1193292011830 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1193292011831 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292011832 Walker A/P-loop; other site 1193292011833 ATP binding site [chemical binding]; other site 1193292011834 Q-loop/lid; other site 1193292011835 ABC transporter signature motif; other site 1193292011836 Walker B; other site 1193292011837 D-loop; other site 1193292011838 H-loop/switch region; other site 1193292011839 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1193292011840 Helix-turn-helix domain; Region: HTH_28; pfam13518 1193292011841 Helix-turn-helix domain; Region: HTH_28; pfam13518 1193292011842 putative transposase OrfB; Reviewed; Region: PHA02517 1193292011843 HTH-like domain; Region: HTH_21; pfam13276 1193292011844 Integrase core domain; Region: rve; pfam00665 1193292011845 Integrase core domain; Region: rve_2; pfam13333 1193292011846 hypothetical protein; Provisional; Region: PRK06062 1193292011847 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 1193292011848 inhibitor-cofactor binding pocket; inhibition site 1193292011849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292011850 catalytic residue [active] 1193292011851 malonic semialdehyde reductase; Provisional; Region: PRK10538 1193292011852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292011853 NAD(P) binding site [chemical binding]; other site 1193292011854 active site 1193292011855 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292011856 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292011857 Walker A/P-loop; other site 1193292011858 ATP binding site [chemical binding]; other site 1193292011859 Q-loop/lid; other site 1193292011860 ABC transporter signature motif; other site 1193292011861 Walker B; other site 1193292011862 D-loop; other site 1193292011863 H-loop/switch region; other site 1193292011864 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 1193292011865 dimer interface [polypeptide binding]; other site 1193292011866 conserved gate region; other site 1193292011867 putative PBP binding loops; other site 1193292011868 ABC-ATPase subunit interface; other site 1193292011869 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1193292011870 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 1193292011871 dimer interface [polypeptide binding]; other site 1193292011872 conserved gate region; other site 1193292011873 putative PBP binding loops; other site 1193292011874 ABC-ATPase subunit interface; other site 1193292011875 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292011876 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 1193292011877 substrate binding pocket [chemical binding]; other site 1193292011878 membrane-bound complex binding site; other site 1193292011879 hinge residues; other site 1193292011880 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 1193292011881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292011882 DNA-binding site [nucleotide binding]; DNA binding site 1193292011883 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 1193292011884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292011885 homodimer interface [polypeptide binding]; other site 1193292011886 catalytic residue [active] 1193292011887 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 1193292011888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292011889 DNA-binding site [nucleotide binding]; DNA binding site 1193292011890 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 1193292011891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292011892 homodimer interface [polypeptide binding]; other site 1193292011893 catalytic residue [active] 1193292011894 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1193292011895 EamA-like transporter family; Region: EamA; cl17759 1193292011896 allantoate amidohydrolase; Reviewed; Region: PRK12893 1193292011897 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1193292011898 active site 1193292011899 metal binding site [ion binding]; metal-binding site 1193292011900 dimer interface [polypeptide binding]; other site 1193292011901 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1193292011902 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292011903 Walker A/P-loop; other site 1193292011904 ATP binding site [chemical binding]; other site 1193292011905 Q-loop/lid; other site 1193292011906 ABC transporter signature motif; other site 1193292011907 Walker B; other site 1193292011908 D-loop; other site 1193292011909 H-loop/switch region; other site 1193292011910 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292011911 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1193292011912 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292011913 Walker A/P-loop; other site 1193292011914 ATP binding site [chemical binding]; other site 1193292011915 Q-loop/lid; other site 1193292011916 ABC transporter signature motif; other site 1193292011917 Walker B; other site 1193292011918 D-loop; other site 1193292011919 H-loop/switch region; other site 1193292011920 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1193292011921 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1193292011922 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 1193292011923 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1193292011924 Protein of unknown function (DUF419); Region: DUF419; cl15265 1193292011925 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 1193292011926 dimer interface [polypeptide binding]; other site 1193292011927 conserved gate region; other site 1193292011928 putative PBP binding loops; other site 1193292011929 ABC-ATPase subunit interface; other site 1193292011930 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_8; cd08495 1193292011931 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1193292011932 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1193292011933 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1193292011934 Predicted periplasmic protein [Function unknown]; Region: COG3698 1193292011935 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1193292011936 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1193292011937 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1193292011938 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292011939 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292011940 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1193292011941 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1193292011942 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1193292011943 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1193292011944 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1193292011945 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1193292011946 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1193292011947 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 1193292011948 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1193292011949 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292011950 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1193292011951 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1193292011952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1193292011953 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292011954 hypothetical protein; Provisional; Region: PRK10250 1193292011955 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1193292011956 dimer interface [polypeptide binding]; other site 1193292011957 FMN binding site [chemical binding]; other site 1193292011958 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; cd00006 1193292011959 active site 1193292011960 active pocket/dimerization site; other site 1193292011961 phosphorylation site [posttranslational modification] 1193292011962 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1193292011963 active site 1193292011964 phosphorylation site [posttranslational modification] 1193292011965 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1193292011966 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1193292011967 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1193292011968 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 1193292011969 dimer interface [polypeptide binding]; other site 1193292011970 active site 1193292011971 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 1193292011972 dimer interface [polypeptide binding]; other site 1193292011973 active site 1193292011974 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1193292011975 A subgroup of the 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_1; cd05710 1193292011976 putative active site [active] 1193292011977 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 1193292011978 dimer interface [polypeptide binding]; other site 1193292011979 active site 1193292011980 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1193292011981 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 1193292011982 ATP binding site [chemical binding]; other site 1193292011983 Walker B motif; other site 1193292011984 arginine finger; other site 1193292011985 Transcriptional antiterminator [Transcription]; Region: COG3933 1193292011986 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; cd00006 1193292011987 active pocket/dimerization site; other site 1193292011988 active site 1193292011989 phosphorylation site [posttranslational modification] 1193292011990 PRD domain; Region: PRD; pfam00874 1193292011991 Helix-turn-helix domain; Region: HTH_31; pfam13560 1193292011992 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1193292011993 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 1193292011994 putative substrate translocation pore; other site 1193292011995 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1193292011996 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1193292011997 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292011998 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292011999 DNA binding site [nucleotide binding] 1193292012000 domain linker motif; other site 1193292012001 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1193292012002 dimerization interface [polypeptide binding]; other site 1193292012003 ligand binding site [chemical binding]; other site 1193292012004 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292012005 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292012006 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292012007 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1193292012008 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1193292012009 Metal-binding active site; metal-binding site 1193292012010 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1193292012011 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 1193292012012 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 1193292012013 putative substrate translocation pore; other site 1193292012014 phenylalanine transporter; Provisional; Region: PRK10249 1193292012015 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1193292012016 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292012017 N-terminal plug; other site 1193292012018 ligand-binding site [chemical binding]; other site 1193292012019 PQQ-like domain; Region: PQQ_2; pfam13360 1193292012020 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1193292012021 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1193292012022 NAD(P) binding site [chemical binding]; other site 1193292012023 catalytic residues [active] 1193292012024 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1193292012025 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1193292012026 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1193292012027 Amino acid permease; Region: AA_permease_2; pfam13520 1193292012028 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 1193292012029 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 1193292012030 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1193292012031 active site 1193292012032 Zn binding site [ion binding]; other site 1193292012033 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 1193292012034 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1193292012035 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 1193292012036 DNA binding residues [nucleotide binding] 1193292012037 dimerization interface [polypeptide binding]; other site 1193292012038 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1193292012039 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 1193292012040 FeS/SAM binding site; other site 1193292012041 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1193292012042 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1193292012043 Sulfatase; Region: Sulfatase; pfam00884 1193292012044 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1193292012045 classical (c) SDRs; Region: SDR_c; cd05233 1193292012046 NAD(P) binding site [chemical binding]; other site 1193292012047 active site 1193292012048 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 1193292012049 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 1193292012050 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292012051 active site 1193292012052 catalytic tetrad [active] 1193292012053 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 1193292012054 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 1193292012055 substrate binding pocket [chemical binding]; other site 1193292012056 membrane-bound complex binding site; other site 1193292012057 hinge residues; other site 1193292012058 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1193292012059 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1193292012060 metal binding site [ion binding]; metal-binding site 1193292012061 putative dimer interface [polypeptide binding]; other site 1193292012062 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1193292012063 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1193292012064 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 1193292012065 intersubunit interface [polypeptide binding]; other site 1193292012066 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292012067 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 1193292012068 ABC-ATPase subunit interface; other site 1193292012069 dimer interface [polypeptide binding]; other site 1193292012070 putative PBP binding regions; other site 1193292012071 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1193292012072 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1193292012073 Walker A/P-loop; other site 1193292012074 ATP binding site [chemical binding]; other site 1193292012075 Q-loop/lid; other site 1193292012076 ABC transporter signature motif; other site 1193292012077 Walker B; other site 1193292012078 D-loop; other site 1193292012079 H-loop/switch region; other site 1193292012080 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1193292012081 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292012082 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292012083 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 1193292012084 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1193292012085 Transcriptional regulator; Region: Rrf2; cl17282 1193292012086 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292012087 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1193292012088 putative substrate binding site [chemical binding]; other site 1193292012089 putative ATP binding site [chemical binding]; other site 1193292012090 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1193292012091 trimer interface; other site 1193292012092 sugar binding site [chemical binding]; other site 1193292012093 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1193292012094 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 1193292012095 active site turn [active] 1193292012096 phosphorylation site [posttranslational modification] 1193292012097 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1193292012098 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1193292012099 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1193292012100 substrate binding [chemical binding]; other site 1193292012101 active site 1193292012102 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1193292012103 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1193292012104 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292012105 DNA binding site [nucleotide binding] 1193292012106 domain linker motif; other site 1193292012107 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1193292012108 dimerization interface [polypeptide binding]; other site 1193292012109 ligand binding site [chemical binding]; other site 1193292012110 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292012111 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 1193292012112 TM-ABC transporter signature motif; other site 1193292012113 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1193292012114 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292012115 Walker A/P-loop; other site 1193292012116 ATP binding site [chemical binding]; other site 1193292012117 Q-loop/lid; other site 1193292012118 ABC transporter signature motif; other site 1193292012119 Walker B; other site 1193292012120 D-loop; other site 1193292012121 H-loop/switch region; other site 1193292012122 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292012123 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1193292012124 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1193292012125 putative ligand binding site [chemical binding]; other site 1193292012126 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1193292012127 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292012128 DNA binding site [nucleotide binding] 1193292012129 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1193292012130 putative ligand binding site [chemical binding]; other site 1193292012131 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292012132 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292012133 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292012134 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292012135 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292012136 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292012137 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292012138 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1193292012139 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1193292012140 Metal-binding active site; metal-binding site 1193292012141 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 1193292012142 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 1193292012143 dimer interface [polypeptide binding]; other site 1193292012144 putative anticodon binding site; other site 1193292012145 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1193292012146 motif 1; other site 1193292012147 active site 1193292012148 motif 2; other site 1193292012149 motif 3; other site 1193292012150 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1193292012151 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 1193292012152 putative substrate translocation pore; other site 1193292012153 POT family; Region: PTR2; pfam00854 1193292012154 lysine decarboxylase CadA; Provisional; Region: PRK15400 1193292012155 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1193292012156 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1193292012157 homodimer interface [polypeptide binding]; other site 1193292012158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292012159 catalytic residue [active] 1193292012160 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1193292012161 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 1193292012162 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 1193292012163 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 1193292012164 DNA binding site [nucleotide binding] 1193292012165 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292012166 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1193292012167 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1193292012168 putative acyl-acceptor binding pocket; other site 1193292012169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292012170 Coenzyme A binding pocket [chemical binding]; other site 1193292012171 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292012172 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1193292012173 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292012174 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292012175 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292012176 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1193292012177 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292012178 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292012179 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292012180 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1193292012181 DNA binding residues [nucleotide binding] 1193292012182 dimerization interface [polypeptide binding]; other site 1193292012183 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 1193292012184 dimer interface [polypeptide binding]; other site 1193292012185 Citrate synthase; Region: Citrate_synt; pfam00285 1193292012186 active site 1193292012187 citrylCoA binding site [chemical binding]; other site 1193292012188 NADH binding [chemical binding]; other site 1193292012189 cationic pore residues; other site 1193292012190 oxalacetate/citrate binding site [chemical binding]; other site 1193292012191 coenzyme A binding site [chemical binding]; other site 1193292012192 catalytic triad [active] 1193292012193 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1193292012194 active site 1193292012195 homotetramer interface [polypeptide binding]; other site 1193292012196 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1193292012197 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1193292012198 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1193292012199 homodimer interface [polypeptide binding]; other site 1193292012200 NADP binding site [chemical binding]; other site 1193292012201 substrate binding site [chemical binding]; other site 1193292012202 ribosome-associated protein; Provisional; Region: PRK11507 1193292012203 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 1193292012204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 1193292012205 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 1193292012206 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1193292012207 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1193292012208 active site 1193292012209 HIGH motif; other site 1193292012210 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1193292012211 KMSKS motif; other site 1193292012212 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1193292012213 tRNA binding surface [nucleotide binding]; other site 1193292012214 anticodon binding site; other site 1193292012215 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1193292012216 substrate binding site [chemical binding]; other site 1193292012217 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1193292012218 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1193292012219 putative active site [active] 1193292012220 putative metal binding site [ion binding]; other site 1193292012221 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1193292012222 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1193292012223 ATP-grasp domain; Region: ATP-grasp; pfam02222 1193292012224 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1193292012225 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1193292012226 putative substrate binding site [chemical binding]; other site 1193292012227 nucleotide binding site [chemical binding]; other site 1193292012228 nucleotide binding site [chemical binding]; other site 1193292012229 homodimer interface [polypeptide binding]; other site 1193292012230 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 1193292012231 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 1193292012232 membrane protein FdrA; Validated; Region: PRK06091 1193292012233 CoA binding domain; Region: CoA_binding; pfam02629 1193292012234 CoA-ligase; Region: Ligase_CoA; pfam00549 1193292012235 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 1193292012236 allantoate amidohydrolase; Region: AllC; TIGR03176 1193292012237 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1193292012238 active site 1193292012239 metal binding site [ion binding]; metal-binding site 1193292012240 dimer interface [polypeptide binding]; other site 1193292012241 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 1193292012242 Mif2/CENP-C like; Region: Mif2; pfam11699 1193292012243 Cupin domain; Region: Cupin_2; pfam07883 1193292012244 glycerate kinase II; Provisional; Region: PRK09932 1193292012245 putative uracil/xanthine transporter; Provisional; Region: PRK11412 1193292012246 allantoinase; Provisional; Region: PRK08044 1193292012247 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 1193292012248 active site 1193292012249 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 1193292012250 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1193292012251 Na binding site [ion binding]; other site 1193292012252 substrate binding site [chemical binding]; other site 1193292012253 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 1193292012254 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292012255 putative substrate translocation pore; other site 1193292012256 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1193292012257 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1193292012258 hydroxypyruvate isomerase; Provisional; Region: PRK09997 1193292012259 glyoxylate carboligase; Provisional; Region: PRK11269 1193292012260 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1193292012261 PYR/PP interface [polypeptide binding]; other site 1193292012262 dimer interface [polypeptide binding]; other site 1193292012263 TPP binding site [chemical binding]; other site 1193292012264 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1193292012265 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 1193292012266 TPP-binding site [chemical binding]; other site 1193292012267 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 1193292012268 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1193292012269 Bacterial transcriptional regulator; Region: IclR; pfam01614 1193292012270 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1193292012271 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1193292012272 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 1193292012273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292012274 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 1193292012275 dimerization interface [polypeptide binding]; other site 1193292012276 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1193292012277 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1193292012278 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1193292012279 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1193292012280 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 1193292012281 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1193292012282 Walker A/P-loop; other site 1193292012283 ATP binding site [chemical binding]; other site 1193292012284 Q-loop/lid; other site 1193292012285 ABC transporter signature motif; other site 1193292012286 Walker B; other site 1193292012287 D-loop; other site 1193292012288 H-loop/switch region; other site 1193292012289 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1193292012290 active site 1193292012291 catalytic triad [active] 1193292012292 oxyanion hole [active] 1193292012293 switch loop; other site 1193292012294 oxidoreductase; Provisional; Region: PRK08017 1193292012295 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1193292012296 NADP binding site [chemical binding]; other site 1193292012297 active site 1193292012298 steroid binding site; other site 1193292012299 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1193292012300 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 1193292012301 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1193292012302 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 1193292012303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292012304 Walker A/P-loop; other site 1193292012305 ATP binding site [chemical binding]; other site 1193292012306 Q-loop/lid; other site 1193292012307 ABC transporter signature motif; other site 1193292012308 Walker B; other site 1193292012309 D-loop; other site 1193292012310 H-loop/switch region; other site 1193292012311 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1193292012312 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 1193292012313 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1193292012314 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 1193292012315 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1193292012316 DNA binding residues [nucleotide binding] 1193292012317 dimer interface [polypeptide binding]; other site 1193292012318 copper binding site [ion binding]; other site 1193292012319 copper exporting ATPase; Provisional; Region: copA; PRK10671 1193292012320 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 1193292012321 metal-binding site [ion binding] 1193292012322 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 1193292012323 metal-binding site [ion binding] 1193292012324 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1193292012325 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 1193292012326 motif II; other site 1193292012327 TraB family; Region: TraB; cl12050 1193292012328 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 1193292012329 putative deacylase active site [active] 1193292012330 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1193292012331 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1193292012332 active site 1193292012333 metal binding site [ion binding]; metal-binding site 1193292012334 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1193292012335 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 1193292012336 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292012337 putative substrate translocation pore; other site 1193292012338 putative cation:proton antiport protein; Provisional; Region: PRK10669 1193292012339 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1193292012340 TrkA-N domain; Region: TrkA_N; pfam02254 1193292012341 inosine/guanosine kinase; Provisional; Region: PRK15074 1193292012342 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292012343 ferrochelatase; Reviewed; Region: hemH; PRK00035 1193292012344 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 1193292012345 C-terminal domain interface [polypeptide binding]; other site 1193292012346 active site 1193292012347 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 1193292012348 active site 1193292012349 N-terminal domain interface [polypeptide binding]; other site 1193292012350 adenylate kinase; Reviewed; Region: adk; PRK00279 1193292012351 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 1193292012352 AMP-binding site [chemical binding]; other site 1193292012353 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1193292012354 heat shock protein 90; Provisional; Region: PRK05218 1193292012355 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 1193292012356 ATP binding site [chemical binding]; other site 1193292012357 Mg2+ binding site [ion binding]; other site 1193292012358 G-X-G motif; other site 1193292012359 hypothetical protein; Validated; Region: PRK00153 1193292012360 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 1193292012361 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1193292012362 Walker A motif; other site 1193292012363 ATP binding site [chemical binding]; other site 1193292012364 Walker B motif; other site 1193292012365 arginine finger; other site 1193292012366 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1193292012367 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 1193292012368 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1193292012369 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1193292012370 active site 1193292012371 hypothetical protein; Provisional; Region: PRK10527 1193292012372 primosomal replication protein N''; Provisional; Region: PRK10093 1193292012373 hypothetical protein; Provisional; Region: PRK11038 1193292012374 putative transposase; Provisional; Region: PRK09857 1193292012375 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1193292012376 hypothetical protein; Provisional; Region: PRK11281 1193292012377 M domain of GW182; Region: M_domain; pfam12938 1193292012378 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1193292012379 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1193292012380 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1193292012381 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1193292012382 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292012383 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1193292012384 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1193292012385 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292012386 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1193292012387 Protein export membrane protein; Region: SecD_SecF; cl14618 1193292012388 Hha toxicity attenuator; Provisional; Region: PRK10667 1193292012389 gene expression modulator; Provisional; Region: PRK10945 1193292012390 maltose O-acetyltransferase; Provisional; Region: PRK10092 1193292012391 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1193292012392 active site 1193292012393 substrate binding site [chemical binding]; other site 1193292012394 trimer interface [polypeptide binding]; other site 1193292012395 CoA binding site [chemical binding]; other site 1193292012396 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 1193292012397 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 1193292012398 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292012399 DNA-binding site [nucleotide binding]; DNA binding site 1193292012400 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 1193292012401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292012402 homodimer interface [polypeptide binding]; other site 1193292012403 catalytic residue [active] 1193292012404 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1193292012405 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1193292012406 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1193292012407 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1193292012408 lac repressor; Reviewed; Region: lacI; PRK09526 1193292012409 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292012410 DNA binding site [nucleotide binding] 1193292012411 domain linker motif; other site 1193292012412 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 1193292012413 ligand binding site [chemical binding]; other site 1193292012414 dimerization interface (open form) [polypeptide binding]; other site 1193292012415 dimerization interface (closed form) [polypeptide binding]; other site 1193292012416 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1193292012417 trimer interface; other site 1193292012418 sugar binding site [chemical binding]; other site 1193292012419 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 1193292012420 active site turn [active] 1193292012421 phosphorylation site [posttranslational modification] 1193292012422 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1193292012423 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1193292012424 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1193292012425 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1193292012426 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 1193292012427 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1193292012428 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 1193292012429 dimer interface [polypeptide binding]; other site 1193292012430 conserved gate region; other site 1193292012431 putative PBP binding loops; other site 1193292012432 ABC-ATPase subunit interface; other site 1193292012433 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 1193292012434 dimer interface [polypeptide binding]; other site 1193292012435 conserved gate region; other site 1193292012436 ABC-ATPase subunit interface; other site 1193292012437 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1193292012438 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1193292012439 DAK2 domain; Region: Dak2; cl03685 1193292012440 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1193292012441 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1193292012442 Walker A/P-loop; other site 1193292012443 ATP binding site [chemical binding]; other site 1193292012444 Q-loop/lid; other site 1193292012445 ABC transporter signature motif; other site 1193292012446 Walker B; other site 1193292012447 D-loop; other site 1193292012448 H-loop/switch region; other site 1193292012449 TOBE domain; Region: TOBE_2; pfam08402 1193292012450 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1193292012451 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1193292012452 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292012453 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1193292012454 putative homodimer interface [polypeptide binding]; other site 1193292012455 putative homotetramer interface [polypeptide binding]; other site 1193292012456 putative metal binding site [ion binding]; other site 1193292012457 putative homodimer-homodimer interface [polypeptide binding]; other site 1193292012458 putative allosteric switch controlling residues; other site 1193292012459 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 1193292012460 Predicted membrane protein [Function unknown]; Region: COG2364 1193292012461 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1193292012462 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1193292012463 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 1193292012464 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292012465 DNA-binding site [nucleotide binding]; DNA binding site 1193292012466 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 1193292012467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292012468 homodimer interface [polypeptide binding]; other site 1193292012469 catalytic residue [active] 1193292012470 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 1193292012471 active site 1193292012472 DNA binding site [nucleotide binding] 1193292012473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1193292012474 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1193292012475 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 1193292012476 active site 1193292012477 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 1193292012478 catalytic triad [active] 1193292012479 dimer interface [polypeptide binding]; other site 1193292012480 ammonium transporter; Provisional; Region: PRK10666 1193292012481 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 1193292012482 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1193292012483 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 1193292012484 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1193292012485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292012486 Walker A/P-loop; other site 1193292012487 ATP binding site [chemical binding]; other site 1193292012488 Q-loop/lid; other site 1193292012489 ABC transporter signature motif; other site 1193292012490 Walker B; other site 1193292012491 D-loop; other site 1193292012492 H-loop/switch region; other site 1193292012493 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1193292012494 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1193292012495 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292012496 Walker A/P-loop; other site 1193292012497 ATP binding site [chemical binding]; other site 1193292012498 Q-loop/lid; other site 1193292012499 ABC transporter signature motif; other site 1193292012500 Walker B; other site 1193292012501 D-loop; other site 1193292012502 H-loop/switch region; other site 1193292012503 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1193292012504 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 1193292012505 putative DNA binding site [nucleotide binding]; other site 1193292012506 putative Zn2+ binding site [ion binding]; other site 1193292012507 AsnC family; Region: AsnC_trans_reg; pfam01037 1193292012508 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1193292012509 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1193292012510 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1193292012511 catalytic residue [active] 1193292012512 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 1193292012513 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 1193292012514 active site 1193292012515 motif I; other site 1193292012516 motif II; other site 1193292012517 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1193292012518 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 1193292012519 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1193292012520 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 1193292012521 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1193292012522 Ligand Binding Site [chemical binding]; other site 1193292012523 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 1193292012524 active site 1193292012525 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1193292012526 periplasmic folding chaperone; Provisional; Region: PRK10788 1193292012527 SurA N-terminal domain; Region: SurA_N_3; cl07813 1193292012528 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1193292012529 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1193292012530 IHF dimer interface [polypeptide binding]; other site 1193292012531 IHF - DNA interface [nucleotide binding]; other site 1193292012532 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 1193292012533 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1193292012534 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1193292012535 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 1193292012536 Walker A motif; other site 1193292012537 ATP binding site [chemical binding]; other site 1193292012538 Walker B motif; other site 1193292012539 arginine finger; other site 1193292012540 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1193292012541 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1193292012542 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1193292012543 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 1193292012544 Walker A motif; other site 1193292012545 ATP binding site [chemical binding]; other site 1193292012546 Walker B motif; other site 1193292012547 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1193292012548 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1193292012549 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1193292012550 oligomer interface [polypeptide binding]; other site 1193292012551 active site residues [active] 1193292012552 trigger factor; Provisional; Region: tig; PRK01490 1193292012553 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1193292012554 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1193292012555 transcriptional regulator BolA; Provisional; Region: PRK11628 1193292012556 hypothetical protein; Provisional; Region: PRK11627 1193292012557 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1193292012558 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1193292012559 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 1193292012560 putative substrate translocation pore; other site 1193292012561 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1193292012562 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1193292012563 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1193292012564 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1193292012565 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 1193292012566 D-pathway; other site 1193292012567 Putative ubiquinol binding site [chemical binding]; other site 1193292012568 Low-spin heme (heme b) binding site [chemical binding]; other site 1193292012569 Putative water exit pathway; other site 1193292012570 Binuclear center (heme o3/CuB) [ion binding]; other site 1193292012571 K-pathway; other site 1193292012572 Putative proton exit pathway; other site 1193292012573 Ubiquinol oxidase subunit III subfamily. 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...; Region: Ubiquinol_oxidase_III; cd02863 1193292012574 Subunit I/III interface [polypeptide binding]; other site 1193292012575 Subunit III/IV interface [polypeptide binding]; other site 1193292012576 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 1193292012577 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1193292012578 UbiA prenyltransferase family; Region: UbiA; pfam01040 1193292012579 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1193292012580 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1193292012581 Bacterial transcriptional regulator; Region: IclR; pfam01614 1193292012582 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1193292012583 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1193292012584 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1193292012585 shikimate binding site; other site 1193292012586 NAD(P) binding site [chemical binding]; other site 1193292012587 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1193292012588 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1193292012589 NIPSNAP; Region: NIPSNAP; pfam07978 1193292012590 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1193292012591 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1193292012592 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1193292012593 benzoate transport; Region: 2A0115; TIGR00895 1193292012594 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 1193292012595 putative substrate translocation pore; other site 1193292012596 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 1193292012597 putative substrate translocation pore; other site 1193292012598 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292012599 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292012600 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292012601 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 1193292012602 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292012603 putative substrate translocation pore; other site 1193292012604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1193292012605 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1193292012606 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1193292012607 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1193292012608 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1193292012609 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 1193292012610 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1193292012611 conserved cys residue [active] 1193292012612 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1193292012613 putative hydrophobic ligand binding site [chemical binding]; other site 1193292012614 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1193292012615 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1193292012616 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1193292012617 Ligand Binding Site [chemical binding]; other site 1193292012618 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 1193292012619 active site residue [active] 1193292012620 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1193292012621 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1193292012622 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1193292012623 substrate binding pocket [chemical binding]; other site 1193292012624 chain length determination region; other site 1193292012625 substrate-Mg2+ binding site; other site 1193292012626 catalytic residues [active] 1193292012627 aspartate-rich region 1; other site 1193292012628 active site lid residues [active] 1193292012629 aspartate-rich region 2; other site 1193292012630 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 1193292012631 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292012632 active site 1193292012633 catalytic tetrad [active] 1193292012634 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1193292012635 tetramer interfaces [polypeptide binding]; other site 1193292012636 binuclear metal-binding site [ion binding]; other site 1193292012637 thiamine monophosphate kinase; Provisional; Region: PRK05731 1193292012638 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 1193292012639 ATP binding site [chemical binding]; other site 1193292012640 dimerization interface [polypeptide binding]; other site 1193292012641 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1193292012642 putative RNA binding site [nucleotide binding]; other site 1193292012643 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 1193292012644 homopentamer interface [polypeptide binding]; other site 1193292012645 active site 1193292012646 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1193292012647 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 1193292012648 catalytic motif [active] 1193292012649 Zn binding site [ion binding]; other site 1193292012650 RibD C-terminal domain; Region: RibD_C; cl17279 1193292012651 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1193292012652 ATP cone domain; Region: ATP-cone; pfam03477 1193292012653 hypothetical protein; Provisional; Region: PRK11530 1193292012654 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 1193292012655 Predicted transcriptional regulator [Transcription]; Region: COG2378 1193292012656 HTH domain; Region: HTH_11; pfam08279 1193292012657 WYL domain; Region: WYL; pfam13280 1193292012658 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 1193292012659 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292012660 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1193292012661 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1193292012662 Protein export membrane protein; Region: SecD_SecF; pfam02355 1193292012663 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1193292012664 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1193292012665 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1193292012666 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1193292012667 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1193292012668 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1193292012669 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1193292012670 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1193292012671 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1193292012672 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 1193292012673 peroxidase; Provisional; Region: PRK15000 1193292012674 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 1193292012675 dimer interface [polypeptide binding]; other site 1193292012676 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1193292012677 catalytic triad [active] 1193292012678 peroxidatic and resolving cysteines [active] 1193292012679 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 1193292012680 active site 1193292012681 phosphorylation site [posttranslational modification] 1193292012682 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 1193292012683 active site 1193292012684 P-loop; other site 1193292012685 phosphorylation site [posttranslational modification] 1193292012686 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1193292012687 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292012688 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 1193292012689 substrate binding site [chemical binding]; other site 1193292012690 ATP binding site [chemical binding]; other site 1193292012691 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1193292012692 intersubunit interface [polypeptide binding]; other site 1193292012693 active site 1193292012694 zinc binding site [ion binding]; other site 1193292012695 Na+ binding site [ion binding]; other site 1193292012696 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1193292012697 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1193292012698 active site 1193292012699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1193292012700 Isochorismatase family; Region: Isochorismatase; pfam00857 1193292012701 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1193292012702 catalytic triad [active] 1193292012703 dimer interface [polypeptide binding]; other site 1193292012704 conserved cis-peptide bond; other site 1193292012705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292012706 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1193292012707 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 1193292012708 dimerization interface [polypeptide binding]; other site 1193292012709 maltodextrin glucosidase; Provisional; Region: PRK10785 1193292012710 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1193292012711 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1193292012712 active site 1193292012713 homodimer interface [polypeptide binding]; other site 1193292012714 catalytic site [active] 1193292012715 putative proline-specific permease; Provisional; Region: proY; PRK10580 1193292012716 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 1193292012717 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 1193292012718 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1193292012719 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1193292012720 putative active site [active] 1193292012721 heme pocket [chemical binding]; other site 1193292012722 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 1193292012723 dimer interface [polypeptide binding]; other site 1193292012724 phosphorylation site [posttranslational modification] 1193292012725 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 1193292012726 ATP binding site [chemical binding]; other site 1193292012727 Mg2+ binding site [ion binding]; other site 1193292012728 G-X-G motif; other site 1193292012729 transcriptional regulator PhoB; Provisional; Region: PRK10161 1193292012730 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 1193292012731 active site 1193292012732 phosphorylation site [posttranslational modification] 1193292012733 intermolecular recognition site; other site 1193292012734 dimerization interface [polypeptide binding]; other site 1193292012735 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 1193292012736 DNA binding site [nucleotide binding] 1193292012737 exonuclease subunit SbcD; Provisional; Region: PRK10966 1193292012738 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1193292012739 active site 1193292012740 metal binding site [ion binding]; metal-binding site 1193292012741 DNA binding site [nucleotide binding] 1193292012742 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1193292012743 exonuclease subunit SbcC; Provisional; Region: PRK10246 1193292012744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292012745 Walker A/P-loop; other site 1193292012746 ATP binding site [chemical binding]; other site 1193292012747 Q-loop/lid; other site 1193292012748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292012749 ABC transporter signature motif; other site 1193292012750 Walker B; other site 1193292012751 D-loop; other site 1193292012752 H-loop/switch region; other site 1193292012753 fructokinase; Reviewed; Region: PRK09557 1193292012754 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1193292012755 nucleotide binding site [chemical binding]; other site 1193292012756 Acetokinase family; Region: Acetate_kinase; cl17229 1193292012757 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1193292012758 hypothetical protein; Provisional; Region: PRK10579 1193292012759 hypothetical protein; Provisional; Region: PRK10481 1193292012760 hypothetical protein; Provisional; Region: PRK10380 1193292012761 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1193292012762 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 1193292012763 ADP binding site [chemical binding]; other site 1193292012764 magnesium binding site [ion binding]; other site 1193292012765 putative shikimate binding site; other site 1193292012766 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1193292012767 hypothetical protein; Validated; Region: PRK00124 1193292012768 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1193292012769 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1193292012770 hypothetical protein; Provisional; Region: PRK11505 1193292012771 psiF repeat; Region: PsiF_repeat; pfam07769 1193292012772 psiF repeat; Region: PsiF_repeat; pfam07769 1193292012773 alkaline phosphatase; Provisional; Region: PRK10518 1193292012774 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1193292012775 active site 1193292012776 dimer interface [polypeptide binding]; other site 1193292012777 Sigma-S stabilisation anti-adaptor protein; Region: Anti-adapt_IraP; pfam10796 1193292012778 drug efflux system protein MdtG; Provisional; Region: PRK09874 1193292012779 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 1193292012780 putative substrate translocation pore; other site 1193292012781 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1193292012782 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1193292012783 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1193292012784 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1193292012785 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 1193292012786 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 1193292012787 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1193292012788 microcin B17 transporter; Reviewed; Region: PRK11098 1193292012789 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1193292012790 Isochorismatase family; Region: Isochorismatase; pfam00857 1193292012791 catalytic triad [active] 1193292012792 conserved cis-peptide bond; other site 1193292012793 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 1193292012794 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1193292012795 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 1193292012796 dimer interface [polypeptide binding]; other site 1193292012797 active site 1193292012798 Schiff base residues; other site 1193292012799 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1193292012800 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1193292012801 putative acyl-acceptor binding pocket; other site 1193292012802 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1193292012803 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1193292012804 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1193292012805 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1193292012806 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 1193292012807 dimer interface [polypeptide binding]; other site 1193292012808 conserved gate region; other site 1193292012809 putative PBP binding loops; other site 1193292012810 ABC-ATPase subunit interface; other site 1193292012811 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1193292012812 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1193292012813 Walker A/P-loop; other site 1193292012814 ATP binding site [chemical binding]; other site 1193292012815 Q-loop/lid; other site 1193292012816 ABC transporter signature motif; other site 1193292012817 Walker B; other site 1193292012818 D-loop; other site 1193292012819 H-loop/switch region; other site 1193292012820 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 1193292012821 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 1193292012822 substrate binding pocket [chemical binding]; other site 1193292012823 membrane-bound complex binding site; other site 1193292012824 hinge residues; other site 1193292012825 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 1193292012826 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1193292012827 S-methylmethionine transporter; Provisional; Region: PRK11387 1193292012828 ethanolamine permease; Region: 2A0305; TIGR00908 1193292012829 putative transposase OrfB; Reviewed; Region: PHA02517 1193292012830 HTH-like domain; Region: HTH_21; pfam13276 1193292012831 Integrase core domain; Region: rve; pfam00665 1193292012832 Integrase core domain; Region: rve_2; pfam13333 1193292012833 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1193292012834 Helix-turn-helix domain; Region: HTH_28; pfam13518 1193292012835 Helix-turn-helix domain; Region: HTH_28; pfam13518 1193292012836 ethanolamine permease; Region: 2A0305; TIGR00908 1193292012837 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1193292012838 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1193292012839 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1193292012840 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1193292012841 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 1193292012842 putative ligand binding site [chemical binding]; other site 1193292012843 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292012844 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1193292012845 TM-ABC transporter signature motif; other site 1193292012846 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1193292012847 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1193292012848 TM-ABC transporter signature motif; other site 1193292012849 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1193292012850 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1193292012851 Walker A/P-loop; other site 1193292012852 ATP binding site [chemical binding]; other site 1193292012853 Q-loop/lid; other site 1193292012854 ABC transporter signature motif; other site 1193292012855 Walker B; other site 1193292012856 D-loop; other site 1193292012857 H-loop/switch region; other site 1193292012858 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1193292012859 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1193292012860 Walker A/P-loop; other site 1193292012861 ATP binding site [chemical binding]; other site 1193292012862 Q-loop/lid; other site 1193292012863 ABC transporter signature motif; other site 1193292012864 Walker B; other site 1193292012865 D-loop; other site 1193292012866 H-loop/switch region; other site 1193292012867 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292012868 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 1193292012869 substrate binding pocket [chemical binding]; other site 1193292012870 membrane-bound complex binding site; other site 1193292012871 hinge residues; other site 1193292012872 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1193292012873 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1193292012874 Walker A/P-loop; other site 1193292012875 ATP binding site [chemical binding]; other site 1193292012876 Q-loop/lid; other site 1193292012877 ABC transporter signature motif; other site 1193292012878 Walker B; other site 1193292012879 D-loop; other site 1193292012880 H-loop/switch region; other site 1193292012881 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 1193292012882 dimer interface [polypeptide binding]; other site 1193292012883 conserved gate region; other site 1193292012884 putative PBP binding loops; other site 1193292012885 ABC-ATPase subunit interface; other site 1193292012886 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 1193292012887 dimer interface [polypeptide binding]; other site 1193292012888 conserved gate region; other site 1193292012889 putative PBP binding loops; other site 1193292012890 ABC-ATPase subunit interface; other site 1193292012891 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1193292012892 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292012893 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1193292012894 putative fimbrial protein TcfA; Provisional; Region: PRK15308 1193292012895 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1193292012896 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 1193292012897 DNA binding residues [nucleotide binding] 1193292012898 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1193292012899 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1193292012900 Walker A/P-loop; other site 1193292012901 ATP binding site [chemical binding]; other site 1193292012902 Q-loop/lid; other site 1193292012903 ABC transporter signature motif; other site 1193292012904 Walker B; other site 1193292012905 D-loop; other site 1193292012906 H-loop/switch region; other site 1193292012907 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1193292012908 Transferrin; Region: Transferrin; cl02460 1193292012909 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1193292012910 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 1193292012911 dimer interface [polypeptide binding]; other site 1193292012912 conserved gate region; other site 1193292012913 putative PBP binding loops; other site 1193292012914 ABC-ATPase subunit interface; other site 1193292012915 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1193292012916 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 1193292012917 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1193292012918 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1193292012919 EamA-like transporter family; Region: EamA; pfam00892 1193292012920 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 1193292012921 NlpC/P60 family; Region: NLPC_P60; pfam00877 1193292012922 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1193292012923 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1193292012924 trimer interface [polypeptide binding]; other site 1193292012925 eyelet of channel; other site 1193292012926 gamma-glutamyl kinase; Provisional; Region: PRK05429 1193292012927 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 1193292012928 nucleotide binding site [chemical binding]; other site 1193292012929 homotetrameric interface [polypeptide binding]; other site 1193292012930 putative phosphate binding site [ion binding]; other site 1193292012931 putative allosteric binding site; other site 1193292012932 PUA domain; Region: PUA; pfam01472 1193292012933 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1193292012934 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1193292012935 putative catalytic cysteine [active] 1193292012936 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 1193292012937 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1193292012938 DNA-binding interface [nucleotide binding]; DNA binding site 1193292012939 HTH-like domain; Region: HTH_21; pfam13276 1193292012940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1193292012941 Integrase core domain; Region: rve; pfam00665 1193292012942 Integrase core domain; Region: rve_3; pfam13683 1193292012943 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1193292012944 AAA ATPase domain; Region: AAA_16; pfam13191 1193292012945 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 1193292012946 DNA binding residues [nucleotide binding] 1193292012947 dimerization interface [polypeptide binding]; other site 1193292012948 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1193292012949 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1193292012950 tetramer interface [polypeptide binding]; other site 1193292012951 TPP-binding site [chemical binding]; other site 1193292012952 heterodimer interface [polypeptide binding]; other site 1193292012953 phosphorylation loop region [posttranslational modification] 1193292012954 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1193292012955 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1193292012956 alpha subunit interface [polypeptide binding]; other site 1193292012957 TPP binding site [chemical binding]; other site 1193292012958 heterodimer interface [polypeptide binding]; other site 1193292012959 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1193292012960 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1193292012961 E3 interaction surface; other site 1193292012962 lipoyl attachment site [posttranslational modification]; other site 1193292012963 e3 binding domain; Region: E3_binding; pfam02817 1193292012964 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 1193292012965 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1193292012966 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1193292012967 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1193292012968 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292012969 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1193292012970 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 1193292012971 Class I aldolases; Region: Aldolase_Class_I; cl17187 1193292012972 catalytic residue [active] 1193292012973 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 1193292012974 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1193292012975 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1193292012976 putative N- and C-terminal domain interface [polypeptide binding]; other site 1193292012977 putative active site [active] 1193292012978 MgATP binding site [chemical binding]; other site 1193292012979 catalytic site [active] 1193292012980 metal binding site [ion binding]; metal-binding site 1193292012981 putative xylulose binding site [chemical binding]; other site 1193292012982 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1193292012983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292012984 NAD(P) binding site [chemical binding]; other site 1193292012985 active site 1193292012986 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1193292012987 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 1193292012988 putative ligand binding site [chemical binding]; other site 1193292012989 putative NAD binding site [chemical binding]; other site 1193292012990 catalytic site [active] 1193292012991 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1193292012992 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1193292012993 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1193292012994 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1193292012995 putative C-terminal domain interface [polypeptide binding]; other site 1193292012996 putative GSH binding site (G-site) [chemical binding]; other site 1193292012997 putative dimer interface [polypeptide binding]; other site 1193292012998 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1193292012999 putative N-terminal domain interface [polypeptide binding]; other site 1193292013000 putative dimer interface [polypeptide binding]; other site 1193292013001 putative substrate binding pocket (H-site) [chemical binding]; other site 1193292013002 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1193292013003 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 1193292013004 S-adenosylmethionine binding site [chemical binding]; other site 1193292013005 hypothetical protein; Provisional; Region: PRK13687 1193292013006 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; cd00250 1193292013007 substrate binding pocket [chemical binding]; other site 1193292013008 active site 1193292013009 iron coordination sites [ion binding]; other site 1193292013010 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1193292013011 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1193292013012 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1193292013013 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1193292013014 tetramerization interface [polypeptide binding]; other site 1193292013015 NAD(P) binding site [chemical binding]; other site 1193292013016 catalytic residues [active] 1193292013017 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1193292013018 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 1193292013019 inhibitor-cofactor binding pocket; inhibition site 1193292013020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292013021 catalytic residue [active] 1193292013022 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 1193292013023 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 1193292013024 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292013025 DNA-binding site [nucleotide binding]; DNA binding site 1193292013026 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1193292013027 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 1193292013028 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 1193292013029 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1193292013030 active site 1193292013031 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1193292013032 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1193292013033 metal binding site [ion binding]; metal-binding site 1193292013034 dimer interface [polypeptide binding]; other site 1193292013035 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292013036 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292013037 Coenzyme A binding pocket [chemical binding]; other site 1193292013038 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1193292013039 active site 1193292013040 DNA polymerase IV; Validated; Region: PRK02406 1193292013041 DNA binding site [nucleotide binding] 1193292013042 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1193292013043 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1193292013044 active site 1193292013045 catalytic site [active] 1193292013046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1193292013047 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1193292013048 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1193292013049 catalytic loop [active] 1193292013050 iron binding site [ion binding]; other site 1193292013051 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1193292013052 FAD binding pocket [chemical binding]; other site 1193292013053 FAD binding motif [chemical binding]; other site 1193292013054 phosphate binding motif [ion binding]; other site 1193292013055 beta-alpha-beta structure motif; other site 1193292013056 NAD binding pocket [chemical binding]; other site 1193292013057 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1193292013058 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1193292013059 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1193292013060 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1193292013061 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1193292013062 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1193292013063 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1193292013064 E3 interaction surface; other site 1193292013065 lipoyl attachment site [posttranslational modification]; other site 1193292013066 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1193292013067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1193292013068 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1193292013069 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1193292013070 putative active site [active] 1193292013071 putative dimer interface [polypeptide binding]; other site 1193292013072 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1193292013073 dimer interface [polypeptide binding]; other site 1193292013074 active site 1193292013075 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1193292013076 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1193292013077 active site 1193292013078 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1193292013079 C-N hydrolase family amidase; Provisional; Region: PRK10438 1193292013080 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1193292013081 putative active site [active] 1193292013082 catalytic triad [active] 1193292013083 dimer interface [polypeptide binding]; other site 1193292013084 multimer interface [polypeptide binding]; other site 1193292013085 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 1193292013086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292013087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292013088 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 1193292013089 dimerization interface [polypeptide binding]; other site 1193292013090 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1193292013091 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1193292013092 active site 1193292013093 catalytic site [active] 1193292013094 substrate binding site [chemical binding]; other site 1193292013095 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1193292013096 RNA/DNA hybrid binding site [nucleotide binding]; other site 1193292013097 active site 1193292013098 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1193292013099 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 1193292013100 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1193292013101 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 1193292013102 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1193292013103 catalytic residue [active] 1193292013104 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1193292013105 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292013106 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1193292013107 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1193292013108 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1193292013109 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 1193292013110 S-adenosylmethionine binding site [chemical binding]; other site 1193292013111 hypothetical protein; Provisional; Region: PRK05421 1193292013112 putative catalytic site [active] 1193292013113 putative metal binding site [ion binding]; other site 1193292013114 putative phosphate binding site [ion binding]; other site 1193292013115 putative catalytic site [active] 1193292013116 putative phosphate binding site [ion binding]; other site 1193292013117 putative metal binding site [ion binding]; other site 1193292013118 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1193292013119 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 1193292013120 putative substrate translocation pore; other site 1193292013121 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292013122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292013123 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1193292013124 putative effector binding pocket; other site 1193292013125 dimerization interface [polypeptide binding]; other site 1193292013126 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 1193292013127 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1193292013128 active site 1193292013129 catalytic tetrad [active] 1193292013130 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1193292013131 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 1193292013132 active site 1193292013133 motif I; other site 1193292013134 motif II; other site 1193292013135 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1193292013136 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1193292013137 Walker A/P-loop; other site 1193292013138 ATP binding site [chemical binding]; other site 1193292013139 Q-loop/lid; other site 1193292013140 ABC transporter signature motif; other site 1193292013141 Walker B; other site 1193292013142 D-loop; other site 1193292013143 H-loop/switch region; other site 1193292013144 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1193292013145 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 1193292013146 dimer interface [polypeptide binding]; other site 1193292013147 conserved gate region; other site 1193292013148 ABC-ATPase subunit interface; other site 1193292013149 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1193292013150 lipoprotein, YaeC family; Region: TIGR00363 1193292013151 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 1193292013152 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1193292013153 homodimer interaction site [polypeptide binding]; other site 1193292013154 cofactor binding site; other site 1193292013155 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1193292013156 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 1193292013157 dimer interface [polypeptide binding]; other site 1193292013158 motif 1; other site 1193292013159 active site 1193292013160 motif 2; other site 1193292013161 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 1193292013162 putative deacylase active site [active] 1193292013163 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 1193292013164 active site 1193292013165 motif 3; other site 1193292013166 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 1193292013167 anticodon binding site; other site 1193292013168 hypothetical protein; Provisional; Region: PRK11479 1193292013169 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1193292013170 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 1193292013171 NlpE N-terminal domain; Region: NlpE; pfam04170 1193292013172 hypothetical protein; Provisional; Region: PRK09256 1193292013173 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1193292013174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 1193292013175 hypothetical protein; Provisional; Region: PRK04964 1193292013176 Rho-binding antiterminator; Provisional; Region: PRK11625 1193292013177 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1193292013178 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 1193292013179 Ligand Binding Site [chemical binding]; other site 1193292013180 TilS substrate binding domain; Region: TilS; pfam09179 1193292013181 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1193292013182 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1193292013183 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292013184 putative metal binding site [ion binding]; other site 1193292013185 lysine decarboxylase LdcC; Provisional; Region: PRK15399 1193292013186 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1193292013187 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1193292013188 homodimer interface [polypeptide binding]; other site 1193292013189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292013190 catalytic residue [active] 1193292013191 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1193292013192 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1193292013193 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1193292013194 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1193292013195 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1193292013196 putative active site [active] 1193292013197 putative PHP Thumb interface [polypeptide binding]; other site 1193292013198 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 1193292013199 generic binding surface II; other site 1193292013200 generic binding surface I; other site 1193292013201 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1193292013202 RNA/DNA hybrid binding site [nucleotide binding]; other site 1193292013203 active site 1193292013204 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1193292013205 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1193292013206 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1193292013207 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1193292013208 active site 1193292013209 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1193292013210 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1193292013211 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1193292013212 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1193292013213 trimer interface [polypeptide binding]; other site 1193292013214 active site 1193292013215 UDP-GlcNAc binding site [chemical binding]; other site 1193292013216 lipid binding site [chemical binding]; lipid-binding site 1193292013217 periplasmic chaperone; Provisional; Region: PRK10780 1193292013218 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1193292013219 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1193292013220 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292013221 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292013222 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292013223 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292013224 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292013225 Surface antigen; Region: Bac_surface_Ag; pfam01103 1193292013226 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1193292013227 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 1193292013228 active site 1193292013229 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 1193292013230 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 1193292013231 protein binding site [polypeptide binding]; other site 1193292013232 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 1193292013233 putative substrate binding region [chemical binding]; other site 1193292013234 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1193292013235 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1193292013236 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1193292013237 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1193292013238 catalytic residue [active] 1193292013239 putative FPP diphosphate binding site; other site 1193292013240 putative FPP binding hydrophobic cleft; other site 1193292013241 dimer interface [polypeptide binding]; other site 1193292013242 putative IPP diphosphate binding site; other site 1193292013243 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1193292013244 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1193292013245 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1193292013246 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1193292013247 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1193292013248 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 1193292013249 hinge region; other site 1193292013250 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 1193292013251 putative nucleotide binding site [chemical binding]; other site 1193292013252 uridine monophosphate binding site [chemical binding]; other site 1193292013253 homohexameric interface [polypeptide binding]; other site 1193292013254 elongation factor Ts; Provisional; Region: tsf; PRK09377 1193292013255 UBA/TS-N domain; Region: UBA; pfam00627 1193292013256 Elongation factor TS; Region: EF_TS; pfam00889 1193292013257 Elongation factor TS; Region: EF_TS; pfam00889 1193292013258 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 1193292013259 rRNA interaction site [nucleotide binding]; other site 1193292013260 S8 interaction site; other site 1193292013261 putative laminin-1 binding site; other site 1193292013262 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 1193292013263 active site 1193292013264 PII uridylyl-transferase; Provisional; Region: PRK05007 1193292013265 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1193292013266 metal binding triad; other site 1193292013267 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1193292013268 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292013269 Zn2+ binding site [ion binding]; other site 1193292013270 Mg2+ binding site [ion binding]; other site 1193292013271 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1193292013272 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1193292013273 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1193292013274 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1193292013275 trimer interface [polypeptide binding]; other site 1193292013276 active site 1193292013277 substrate binding site [chemical binding]; other site 1193292013278 CoA binding site [chemical binding]; other site 1193292013279 hypothetical protein; Provisional; Region: PRK13677 1193292013280 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 1193292013281 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1193292013282 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1193292013283 serine endoprotease; Provisional; Region: PRK10942 1193292013284 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1193292013285 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 1193292013286 protein binding site [polypeptide binding]; other site 1193292013287 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 1193292013288 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1193292013289 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292013290 Zn2+ binding site [ion binding]; other site 1193292013291 Mg2+ binding site [ion binding]; other site 1193292013292 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1193292013293 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1193292013294 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1193292013295 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1193292013296 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1193292013297 cobalamin binding residues [chemical binding]; other site 1193292013298 putative BtuC binding residues; other site 1193292013299 dimer interface [polypeptide binding]; other site 1193292013300 hypothetical protein; Provisional; Region: PRK10578 1193292013301 UPF0126 domain; Region: UPF0126; pfam03458 1193292013302 UPF0126 domain; Region: UPF0126; pfam03458 1193292013303 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1193292013304 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1193292013305 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1193292013306 Cl- selectivity filter; other site 1193292013307 Cl- binding residues [ion binding]; other site 1193292013308 pore gating glutamate residue; other site 1193292013309 dimer interface [polypeptide binding]; other site 1193292013310 H+/Cl- coupling transport residue; other site 1193292013311 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1193292013312 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 1193292013313 inhibitor-cofactor binding pocket; inhibition site 1193292013314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292013315 catalytic residue [active] 1193292013316 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1193292013317 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 1193292013318 ABC-ATPase subunit interface; other site 1193292013319 dimer interface [polypeptide binding]; other site 1193292013320 putative PBP binding regions; other site 1193292013321 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 1193292013322 ABC-ATPase subunit interface; other site 1193292013323 dimer interface [polypeptide binding]; other site 1193292013324 putative PBP binding regions; other site 1193292013325 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 1193292013326 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1193292013327 siderophore binding site; other site 1193292013328 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 1193292013329 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1193292013330 Walker A/P-loop; other site 1193292013331 ATP binding site [chemical binding]; other site 1193292013332 Q-loop/lid; other site 1193292013333 ABC transporter signature motif; other site 1193292013334 Walker B; other site 1193292013335 D-loop; other site 1193292013336 H-loop/switch region; other site 1193292013337 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1193292013338 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292013339 N-terminal plug; other site 1193292013340 ligand-binding site [chemical binding]; other site 1193292013341 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 1193292013342 Transglycosylase; Region: Transgly; pfam00912 1193292013343 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1193292013344 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 1193292013345 putative transposase OrfB; Reviewed; Region: PHA02517 1193292013346 HTH-like domain; Region: HTH_21; pfam13276 1193292013347 Integrase core domain; Region: rve; pfam00665 1193292013348 Integrase core domain; Region: rve_2; pfam13333 1193292013349 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1193292013350 Helix-turn-helix domain; Region: HTH_28; pfam13518 1193292013351 Helix-turn-helix domain; Region: HTH_28; pfam13518 1193292013352 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1193292013353 carbohydrate binding site [chemical binding]; other site 1193292013354 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 1193292013355 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 1193292013356 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 1193292013357 Ca binding site [ion binding]; other site 1193292013358 active site 1193292013359 catalytic site [active] 1193292013360 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 1193292013361 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 1193292013362 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1193292013363 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1193292013364 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1193292013365 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1193292013366 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1193292013367 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1193292013368 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1193292013369 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1193292013370 Walker A motif; other site 1193292013371 ATP binding site [chemical binding]; other site 1193292013372 Walker B motif; other site 1193292013373 type II secretion system protein F; Region: GspF; TIGR02120 1193292013374 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1193292013375 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1193292013376 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1193292013377 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1193292013378 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1193292013379 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1193292013380 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1193292013381 type II secretion system protein I; Region: gspI; TIGR01707 1193292013382 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1193292013383 type II secretion system protein J; Region: gspJ; TIGR01711 1193292013384 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1193292013385 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1193292013386 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1193292013387 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1193292013388 GspL periplasmic domain; Region: GspL_C; pfam12693 1193292013389 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1193292013390 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1193292013391 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1193292013392 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1193292013393 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1193292013394 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1193292013395 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 1193292013396 ATP binding site [chemical binding]; other site 1193292013397 putative Mg++ binding site [ion binding]; other site 1193292013398 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 1193292013399 nucleotide binding region [chemical binding]; other site 1193292013400 ATP-binding site [chemical binding]; other site 1193292013401 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1193292013402 2'-5' RNA ligase; Provisional; Region: PRK15124 1193292013403 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1193292013404 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1193292013405 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1193292013406 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 1193292013407 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1193292013408 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1193292013409 active site 1193292013410 nucleotide binding site [chemical binding]; other site 1193292013411 HIGH motif; other site 1193292013412 KMSKS motif; other site 1193292013413 poly(A) polymerase; Region: pcnB; TIGR01942 1193292013414 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1193292013415 active site 1193292013416 NTP binding site [chemical binding]; other site 1193292013417 metal binding triad [ion binding]; metal-binding site 1193292013418 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1193292013419 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1193292013420 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 1193292013421 catalytic center binding site [active] 1193292013422 ATP binding site [chemical binding]; other site 1193292013423 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1193292013424 oligomerization interface [polypeptide binding]; other site 1193292013425 active site 1193292013426 metal binding site [ion binding]; metal-binding site 1193292013427 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1193292013428 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1193292013429 active site 1193292013430 ATP-binding site [chemical binding]; other site 1193292013431 pantoate-binding site; other site 1193292013432 HXXH motif; other site 1193292013433 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1193292013434 tetramerization interface [polypeptide binding]; other site 1193292013435 active site 1193292013436 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 1193292013437 putative active site [active] 1193292013438 putative metal binding site [ion binding]; other site 1193292013439 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; cd00006 1193292013440 active pocket/dimerization site; other site 1193292013441 active site 1193292013442 phosphorylation site [posttranslational modification] 1193292013443 inner membrane transport permease; Provisional; Region: PRK15066 1193292013444 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1193292013445 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1193292013446 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1193292013447 Walker A/P-loop; other site 1193292013448 ATP binding site [chemical binding]; other site 1193292013449 Q-loop/lid; other site 1193292013450 ABC transporter signature motif; other site 1193292013451 Walker B; other site 1193292013452 D-loop; other site 1193292013453 H-loop/switch region; other site 1193292013454 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_cladeA; cd00883 1193292013455 active site clefts [active] 1193292013456 zinc binding site [ion binding]; other site 1193292013457 dimer interface [polypeptide binding]; other site 1193292013458 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1193292013459 active site 1193292013460 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1193292013461 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1193292013462 Trp docking motif [polypeptide binding]; other site 1193292013463 putative active site [active] 1193292013464 multicopper oxidase; Provisional; Region: PRK10965 1193292013465 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1193292013466 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1193292013467 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1193292013468 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 1193292013469 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1193292013470 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1193292013471 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1193292013472 spermidine synthase; Provisional; Region: PRK00811 1193292013473 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 1193292013474 S-adenosylmethionine binding site [chemical binding]; other site 1193292013475 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1193292013476 hypothetical protein; Provisional; Region: PRK05248 1193292013477 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1193292013478 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1193292013479 substrate binding site [chemical binding]; other site 1193292013480 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1193292013481 substrate binding site [chemical binding]; other site 1193292013482 ligand binding site [chemical binding]; other site 1193292013483 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1193292013484 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1193292013485 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1193292013486 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1193292013487 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292013488 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1193292013489 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1193292013490 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1193292013491 E3 interaction surface; other site 1193292013492 lipoyl attachment site [posttranslational modification]; other site 1193292013493 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1193292013494 E3 interaction surface; other site 1193292013495 lipoyl attachment site [posttranslational modification]; other site 1193292013496 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1193292013497 E3 interaction surface; other site 1193292013498 lipoyl attachment site [posttranslational modification]; other site 1193292013499 e3 binding domain; Region: E3_binding; pfam02817 1193292013500 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1193292013501 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1193292013502 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 1193292013503 dimer interface [polypeptide binding]; other site 1193292013504 TPP-binding site [chemical binding]; other site 1193292013505 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1193292013506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292013507 DNA-binding site [nucleotide binding]; DNA binding site 1193292013508 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1193292013509 aromatic amino acid transporter; Provisional; Region: PRK10238 1193292013510 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1193292013511 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 1193292013512 putative substrate translocation pore; other site 1193292013513 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1193292013514 active site 1193292013515 regulatory protein AmpE; Provisional; Region: PRK10987 1193292013516 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1193292013517 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 1193292013518 amidase catalytic site [active] 1193292013519 Zn binding residues [ion binding]; other site 1193292013520 substrate binding site [chemical binding]; other site 1193292013521 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 1193292013522 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1193292013523 dimerization interface [polypeptide binding]; other site 1193292013524 active site 1193292013525 putative major pilin subunit; Provisional; Region: PRK10574 1193292013526 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1193292013527 Pilin (bacterial filament); Region: Pilin; pfam00114 1193292013528 hypothetical protein; Provisional; Region: PRK10436 1193292013529 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1193292013530 Walker A motif; other site 1193292013531 ATP binding site [chemical binding]; other site 1193292013532 Walker B motif; other site 1193292013533 type IV pilin biogenesis protein; Provisional; Region: PRK10573 1193292013534 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1193292013535 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1193292013536 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 1193292013537 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 1193292013538 active site 1193292013539 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1193292013540 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 1193292013541 CoA-binding site [chemical binding]; other site 1193292013542 ATP-binding [chemical binding]; other site 1193292013543 hypothetical protein; Provisional; Region: PRK05287 1193292013544 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1193292013545 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1193292013546 active site 1193292013547 8-oxo-dGMP binding site [chemical binding]; other site 1193292013548 nudix motif; other site 1193292013549 metal binding site [ion binding]; metal-binding site 1193292013550 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1193292013551 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1193292013552 SEC-C motif; Region: SEC-C; pfam02810 1193292013553 SecA regulator SecM; Provisional; Region: PRK02943 1193292013554 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1193292013555 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1193292013556 cell division protein FtsZ; Validated; Region: PRK09330 1193292013557 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 1193292013558 nucleotide binding site [chemical binding]; other site 1193292013559 SulA interaction site; other site 1193292013560 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1193292013561 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1193292013562 Cell division protein FtsA; Region: FtsA; pfam14450 1193292013563 cell division protein FtsQ; Provisional; Region: PRK10775 1193292013564 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1193292013565 Cell division protein FtsQ; Region: FtsQ; pfam03799 1193292013566 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1193292013567 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1193292013568 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1193292013569 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1193292013570 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1193292013571 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1193292013572 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1193292013573 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1193292013574 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 1193292013575 active site 1193292013576 homodimer interface [polypeptide binding]; other site 1193292013577 cell division protein FtsW; Provisional; Region: PRK10774 1193292013578 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1193292013579 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1193292013580 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1193292013581 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1193292013582 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 1193292013583 Mg++ binding site [ion binding]; other site 1193292013584 putative catalytic motif [active] 1193292013585 putative substrate binding site [chemical binding]; other site 1193292013586 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1193292013587 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1193292013588 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1193292013589 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1193292013590 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1193292013591 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1193292013592 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1193292013593 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1193292013594 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1193292013595 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1193292013596 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1193292013597 cell division protein FtsL; Provisional; Region: PRK10772 1193292013598 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 1193292013599 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1193292013600 mraZ protein; Region: TIGR00242 1193292013601 MraZ protein; Region: MraZ; pfam02381 1193292013602 MraZ protein; Region: MraZ; pfam02381 1193292013603 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1193292013604 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292013605 DNA binding site [nucleotide binding] 1193292013606 domain linker motif; other site 1193292013607 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1193292013608 dimerization interface [polypeptide binding]; other site 1193292013609 ligand binding site [chemical binding]; other site 1193292013610 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1193292013611 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1193292013612 putative valine binding site [chemical binding]; other site 1193292013613 dimer interface [polypeptide binding]; other site 1193292013614 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1193292013615 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 1193292013616 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1193292013617 PYR/PP interface [polypeptide binding]; other site 1193292013618 dimer interface [polypeptide binding]; other site 1193292013619 TPP binding site [chemical binding]; other site 1193292013620 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1193292013621 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1193292013622 TPP-binding site [chemical binding]; other site 1193292013623 dimer interface [polypeptide binding]; other site 1193292013624 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1193292013625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292013626 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 1193292013627 putative substrate binding pocket [chemical binding]; other site 1193292013628 putative dimerization interface [polypeptide binding]; other site 1193292013629 2-isopropylmalate synthase; Validated; Region: PRK00915 1193292013630 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1193292013631 active site 1193292013632 catalytic residues [active] 1193292013633 metal binding site [ion binding]; metal-binding site 1193292013634 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1193292013635 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1193292013636 tartrate dehydrogenase; Region: TTC; TIGR02089 1193292013637 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1193292013638 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1193292013639 substrate binding site [chemical binding]; other site 1193292013640 ligand binding site [chemical binding]; other site 1193292013641 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1193292013642 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 1193292013643 substrate binding site [chemical binding]; other site 1193292013644 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1193292013645 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1193292013646 active site 1193292013647 FMN binding site [chemical binding]; other site 1193292013648 substrate binding site [chemical binding]; other site 1193292013649 putative catalytic residue [active] 1193292013650 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1193292013651 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292013652 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1193292013653 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1193292013654 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1193292013655 shikimate binding site; other site 1193292013656 NAD(P) binding site [chemical binding]; other site 1193292013657 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 1193292013658 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292013659 putative substrate translocation pore; other site 1193292013660 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1193292013661 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1193292013662 active site 1193292013663 catalytic residue [active] 1193292013664 dimer interface [polypeptide binding]; other site 1193292013665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292013666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292013667 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1193292013668 putative dimerization interface [polypeptide binding]; other site 1193292013669 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 1193292013670 D-galactonate transporter; Region: 2A0114; TIGR00893 1193292013671 putative substrate translocation pore; other site 1193292013672 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 1193292013673 sugar efflux transporter; Region: 2A0120; TIGR00899 1193292013674 putative substrate translocation pore; other site 1193292013675 transcriptional regulator SgrR; Provisional; Region: PRK13626 1193292013676 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1193292013677 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 1193292013678 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1193292013679 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1193292013680 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1193292013681 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 1193292013682 dimer interface [polypeptide binding]; other site 1193292013683 conserved gate region; other site 1193292013684 putative PBP binding loops; other site 1193292013685 ABC-ATPase subunit interface; other site 1193292013686 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 1193292013687 dimer interface [polypeptide binding]; other site 1193292013688 conserved gate region; other site 1193292013689 putative PBP binding loops; other site 1193292013690 ABC-ATPase subunit interface; other site 1193292013691 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1193292013692 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 1193292013693 Walker A/P-loop; other site 1193292013694 ATP binding site [chemical binding]; other site 1193292013695 Q-loop/lid; other site 1193292013696 ABC transporter signature motif; other site 1193292013697 Walker B; other site 1193292013698 D-loop; other site 1193292013699 H-loop/switch region; other site 1193292013700 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1193292013701 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1193292013702 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 1193292013703 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1193292013704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292013705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292013706 ribulokinase; Provisional; Region: PRK04123 1193292013707 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 1193292013708 N- and C-terminal domain interface [polypeptide binding]; other site 1193292013709 active site 1193292013710 MgATP binding site [chemical binding]; other site 1193292013711 catalytic site [active] 1193292013712 metal binding site [ion binding]; metal-binding site 1193292013713 carbohydrate binding site [chemical binding]; other site 1193292013714 homodimer interface [polypeptide binding]; other site 1193292013715 L-arabinose isomerase; Provisional; Region: PRK02929 1193292013716 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 1193292013717 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 1193292013718 trimer interface [polypeptide binding]; other site 1193292013719 putative substrate binding site [chemical binding]; other site 1193292013720 putative metal binding site [ion binding]; other site 1193292013721 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1193292013722 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1193292013723 intersubunit interface [polypeptide binding]; other site 1193292013724 active site 1193292013725 Zn2+ binding site [ion binding]; other site 1193292013726 DNA polymerase II; Reviewed; Region: PRK05762 1193292013727 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1193292013728 active site 1193292013729 catalytic site [active] 1193292013730 substrate binding site [chemical binding]; other site 1193292013731 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 1193292013732 active site 1193292013733 metal-binding site 1193292013734 ATP-dependent helicase HepA; Validated; Region: PRK04914 1193292013735 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 1193292013736 ATP binding site [chemical binding]; other site 1193292013737 putative Mg++ binding site [ion binding]; other site 1193292013738 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 1193292013739 nucleotide binding region [chemical binding]; other site 1193292013740 ATP-binding site [chemical binding]; other site 1193292013741 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1193292013742 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1193292013743 active site 1193292013744 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 1193292013745 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1193292013746 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1193292013747 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1193292013748 putative active site [active] 1193292013749 heme pocket [chemical binding]; other site 1193292013750 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 1193292013751 ATP binding site [chemical binding]; other site 1193292013752 Mg2+ binding site [ion binding]; other site 1193292013753 G-X-G motif; other site 1193292013754 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1193292013755 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 1193292013756 active site 1193292013757 phosphorylation site [posttranslational modification] 1193292013758 intermolecular recognition site; other site 1193292013759 dimerization interface [polypeptide binding]; other site 1193292013760 Transcriptional regulator; Region: CitT; pfam12431 1193292013761 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1193292013762 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1193292013763 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1193292013764 putative metal binding site [ion binding]; other site 1193292013765 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 1193292013766 HSP70 interaction site [polypeptide binding]; other site 1193292013767 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1193292013768 OstA-like protein; Region: OstA; pfam03968 1193292013769 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1193292013770 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1193292013771 SurA N-terminal domain; Region: SurA_N; pfam09312 1193292013772 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1193292013773 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1193292013774 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1193292013775 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1193292013776 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1193292013777 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1193292013778 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1193292013779 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 1193292013780 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1193292013781 active site 1193292013782 metal binding site [ion binding]; metal-binding site 1193292013783 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1193292013784 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 1193292013785 folate binding site [chemical binding]; other site 1193292013786 NADP+ binding site [chemical binding]; other site 1193292013787 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1193292013788 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1193292013789 TrkA-N domain; Region: TrkA_N; pfam02254 1193292013790 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 1193292013791 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1193292013792 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1193292013793 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1193292013794 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1193292013795 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1193292013796 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1193292013797 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1193292013798 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 1193292013799 IMP binding site; other site 1193292013800 dimer interface [polypeptide binding]; other site 1193292013801 interdomain contacts; other site 1193292013802 partial ornithine binding site; other site 1193292013803 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1193292013804 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1193292013805 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1193292013806 catalytic site [active] 1193292013807 subunit interface [polypeptide binding]; other site 1193292013808 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1193292013809 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1193292013810 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1193292013811 alanine-tRNA ligase; Region: PLN02961 1193292013812 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1193292013813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292013814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292013815 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1193292013816 putative effector binding pocket; other site 1193292013817 dimerization interface [polypeptide binding]; other site 1193292013818 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 1193292013819 active site 1193292013820 tetramer interface [polypeptide binding]; other site 1193292013821 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1193292013822 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1193292013823 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1193292013824 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1193292013825 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1193292013826 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1193292013827 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1193292013828 HIGH motif; other site 1193292013829 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1193292013830 active site 1193292013831 KMSKS motif; other site 1193292013832 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1193292013833 tRNA binding surface [nucleotide binding]; other site 1193292013834 anticodon binding site; other site 1193292013835 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1193292013836 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1193292013837 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1193292013838 active site 1193292013839 Riboflavin kinase; Region: Flavokinase; smart00904 1193292013840 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1193292013841 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1193292013842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292013843 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1193292013844 putative dimerization interface [polypeptide binding]; other site 1193292013845 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 1193292013846 chaperone protein DnaJ; Provisional; Region: PRK10767 1193292013847 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 1193292013848 HSP70 interaction site [polypeptide binding]; other site 1193292013849 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1193292013850 substrate binding site [polypeptide binding]; other site 1193292013851 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1193292013852 Zn binding sites [ion binding]; other site 1193292013853 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1193292013854 dimer interface [polypeptide binding]; other site 1193292013855 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1193292013856 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1193292013857 nucleotide binding site [chemical binding]; other site 1193292013858 hypothetical protein; Provisional; Region: PRK10154 1193292013859 hypothetical protein; Provisional; Region: PRK10236 1193292013860 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1193292013861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1193292013862 hypothetical protein; Provisional; Region: PRK10659 1193292013863 metabolite-proton symporter; Region: 2A0106; TIGR00883 1193292013864 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 1193292013865 putative substrate translocation pore; other site 1193292013866 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 1193292013867 MPT binding site; other site 1193292013868 trimer interface [polypeptide binding]; other site 1193292013869 transaldolase-like protein; Provisional; Region: PTZ00411 1193292013870 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1193292013871 active site 1193292013872 dimer interface [polypeptide binding]; other site 1193292013873 catalytic residue [active] 1193292013874 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1193292013875 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1193292013876 hypothetical protein; Validated; Region: PRK02101 1193292013877 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1193292013878 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 1193292013879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292013880 catalytic residue [active] 1193292013881 homoserine kinase; Provisional; Region: PRK01212 1193292013882 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1193292013883 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1193292013884 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1193292013885 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1193292013886 putative catalytic residues [active] 1193292013887 putative nucleotide binding site [chemical binding]; other site 1193292013888 putative aspartate binding site [chemical binding]; other site 1193292013889 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1193292013890 dimer interface [polypeptide binding]; other site 1193292013891 putative threonine allosteric regulatory site; other site 1193292013892 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1193292013893 putative threonine allosteric regulatory site; other site 1193292013894 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1193292013895 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1193292013896 putative RNA methyltransferase; Provisional; Region: PRK10433 1193292013897 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 1193292013898 two-component response regulator; Provisional; Region: PRK11173 1193292013899 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 1193292013900 active site 1193292013901 phosphorylation site [posttranslational modification] 1193292013902 intermolecular recognition site; other site 1193292013903 dimerization interface [polypeptide binding]; other site 1193292013904 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 1193292013905 DNA binding site [nucleotide binding] 1193292013906 Inner membrane protein CreD; Region: CreD; pfam06123 1193292013907 sensory histidine kinase CreC; Provisional; Region: PRK11100 1193292013908 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 1193292013909 dimer interface [polypeptide binding]; other site 1193292013910 phosphorylation site [posttranslational modification] 1193292013911 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 1193292013912 ATP binding site [chemical binding]; other site 1193292013913 Mg2+ binding site [ion binding]; other site 1193292013914 G-X-G motif; other site 1193292013915 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1193292013916 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 1193292013917 active site 1193292013918 phosphorylation site [posttranslational modification] 1193292013919 intermolecular recognition site; other site 1193292013920 dimerization interface [polypeptide binding]; other site 1193292013921 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 1193292013922 DNA binding site [nucleotide binding] 1193292013923 hypothetical protein; Provisional; Region: PRK10756 1193292013924 CreA protein; Region: CreA; pfam05981 1193292013925 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 1193292013926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292013927 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1193292013928 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 1193292013929 catalytic core [active] 1193292013930 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 1193292013931 Trp operon repressor; Provisional; Region: PRK01381 1193292013932 lytic murein transglycosylase; Provisional; Region: PRK11619 1193292013933 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 1193292013934 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1193292013935 catalytic residue [active] 1193292013936 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1193292013937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292013938 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292013939 ABC transporter; Region: ABC_tran_2; pfam12848 1193292013940 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1193292013941 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 1193292013942 non-specific DNA binding site [nucleotide binding]; other site 1193292013943 salt bridge; other site 1193292013944 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1193292013945 sequence-specific DNA binding site [nucleotide binding]; other site 1193292013946 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 1193292013947 active site 1193292013948 (T/H)XGH motif; other site 1193292013949 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1193292013950 DNA repair protein RadA; Region: sms; TIGR00416 1193292013951 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1193292013952 Walker A motif/ATP binding site; other site 1193292013953 ATP binding site [chemical binding]; other site 1193292013954 Walker B motif; other site 1193292013955 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1193292013956 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 1193292013957 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 1193292013958 motif II; other site 1193292013959 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 1193292013960 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1193292013961 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1193292013962 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1193292013963 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1193292013964 phosphopentomutase; Provisional; Region: PRK05362 1193292013965 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1193292013966 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 1193292013967 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1193292013968 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1193292013969 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1193292013970 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1193292013971 intersubunit interface [polypeptide binding]; other site 1193292013972 active site 1193292013973 catalytic residue [active] 1193292013974 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1193292013975 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1193292013976 Nucleoside recognition; Region: Gate; pfam07670 1193292013977 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1193292013978 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1193292013979 active site 1193292013980 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1193292013981 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1193292013982 active site 1193292013983 nucleophile elbow; other site 1193292013984 periplasmic protein; Provisional; Region: PRK10568 1193292013985 BON domain; Region: BON; pfam04972 1193292013986 BON domain; Region: BON; cl02771 1193292013987 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1193292013988 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1193292013989 G1 box; other site 1193292013990 putative GEF interaction site [polypeptide binding]; other site 1193292013991 GTP/Mg2+ binding site [chemical binding]; other site 1193292013992 Switch I region; other site 1193292013993 G2 box; other site 1193292013994 G3 box; other site 1193292013995 Switch II region; other site 1193292013996 G4 box; other site 1193292013997 G5 box; other site 1193292013998 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1193292013999 dUMP phosphatase; Provisional; Region: PRK09449 1193292014000 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 1193292014001 motif II; other site 1193292014002 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1193292014003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292014004 Coenzyme A binding pocket [chemical binding]; other site 1193292014005 DNA polymerase III subunit psi; Validated; Region: PRK06856 1193292014006 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1193292014007 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1193292014008 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 1193292014009 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 1193292014010 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292014011 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292014012 metal binding site [ion binding]; metal-binding site 1193292014013 active site 1193292014014 I-site; other site 1193292014015 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 1193292014016 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1193292014017 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1193292014018 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1193292014019 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1193292014020 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1193292014021 putative deacylase active site [active] 1193292014022 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 1193292014023 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 1193292014024 DNA binding residues [nucleotide binding] 1193292014025 dimerization interface [polypeptide binding]; other site 1193292014026 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1193292014027 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 1193292014028 DNA binding residues [nucleotide binding] 1193292014029 dimerization interface [polypeptide binding]; other site 1193292014030 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1193292014031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292014032 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1193292014033 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1193292014034 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1193292014035 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1193292014036 hypothetical protein; Provisional; Region: PRK09917 1193292014037 primosomal protein DnaI; Provisional; Region: PRK02854 1193292014038 DNA replication protein DnaC; Validated; Region: PRK07952 1193292014039 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 1193292014040 Walker A motif; other site 1193292014041 ATP binding site [chemical binding]; other site 1193292014042 Walker B motif; other site 1193292014043 hypothetical protein; Provisional; Region: PRK11667 1193292014044 phosphoglycerol transferase I; Provisional; Region: PRK03776 1193292014045 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1193292014046 putative transposase; Provisional; Region: PRK09857 1193292014047 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1193292014048 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1193292014049 A subgroup of the 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_1; cd05710 1193292014050 putative active site [active] 1193292014051 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 1193292014052 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1193292014053 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 1193292014054 dimer interface [polypeptide binding]; other site 1193292014055 active site 1193292014056 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 1193292014057 dimer interface [polypeptide binding]; other site 1193292014058 active site 1193292014059 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1193292014060 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1193292014061 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 1193292014062 active site 1193292014063 phosphorylation site [posttranslational modification] 1193292014064 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; cd00006 1193292014065 active pocket/dimerization site; other site 1193292014066 active site 1193292014067 phosphorylation site [posttranslational modification] 1193292014068 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1193292014069 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 1193292014070 Walker A motif; other site 1193292014071 ATP binding site [chemical binding]; other site 1193292014072 Walker B motif; other site 1193292014073 arginine finger; other site 1193292014074 Transcriptional antiterminator [Transcription]; Region: COG3933 1193292014075 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; cd00006 1193292014076 active pocket/dimerization site; other site 1193292014077 active site 1193292014078 phosphorylation site [posttranslational modification] 1193292014079 PRD domain; Region: PRD; pfam00874 1193292014080 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1193292014081 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1193292014082 Coenzyme A binding pocket [chemical binding]; other site 1193292014083 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292014084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292014085 Coenzyme A binding pocket [chemical binding]; other site 1193292014086 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1193292014087 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292014088 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1193292014089 putative active site [active] 1193292014090 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1193292014091 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1193292014092 active site 1193292014093 intersubunit interface [polypeptide binding]; other site 1193292014094 catalytic residue [active] 1193292014095 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1193292014096 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1193292014097 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1193292014098 Na binding site [ion binding]; other site 1193292014099 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1193292014100 homotrimer interaction site [polypeptide binding]; other site 1193292014101 putative active site [active] 1193292014102 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1193292014103 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1193292014104 active site 1193292014105 putative substrate binding pocket [chemical binding]; other site 1193292014106 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1193292014107 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 1193292014108 dimer interface [polypeptide binding]; other site 1193292014109 active site 1193292014110 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1193292014111 substrate binding site [chemical binding]; other site 1193292014112 catalytic residue [active] 1193292014113 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1193292014114 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 1193292014115 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1193292014116 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1193292014117 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1193292014118 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1193292014119 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1193292014120 NAD binding site [chemical binding]; other site 1193292014121 catalytic residues [active] 1193292014122 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1193292014123 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1193292014124 putative active site [active] 1193292014125 putative metal binding site [ion binding]; other site 1193292014126 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1193292014127 putative substrate binding pocket [chemical binding]; other site 1193292014128 trimer interface [polypeptide binding]; other site 1193292014129 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1193292014130 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1193292014131 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1193292014132 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 1193292014133 putative substrate translocation pore; other site 1193292014134 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1193292014135 Cupin domain; Region: Cupin_2; pfam07883 1193292014136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292014137 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 1193292014138 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1193292014139 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 1193292014140 carbon starvation protein A; Provisional; Region: PRK15015 1193292014141 Carbon starvation protein CstA; Region: CstA; pfam02554 1193292014142 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1193292014143 Uncharacterized small protein [Function unknown]; Region: COG2879 1193292014144 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1193292014145 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1193292014146 P-loop, Walker A motif; other site 1193292014147 Base recognition motif; other site 1193292014148 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1193292014149 YfaZ precursor; Region: YfaZ; pfam07437 1193292014150 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1193292014151 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1193292014152 NAD(P) binding site [chemical binding]; other site 1193292014153 catalytic residues [active] 1193292014154 putative transposase; Provisional; Region: PRK09857 1193292014155 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1193292014156 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1193292014157 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292014158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292014159 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1193292014160 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1193292014161 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 1193292014162 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 1193292014163 putative substrate translocation pore; other site 1193292014164 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1193292014165 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 1193292014166 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 1193292014167 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1193292014168 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 1193292014169 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1193292014170 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1193292014171 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1193292014172 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292014173 transcriptional regulator SlyA; Provisional; Region: PRK03573 1193292014174 MarR family; Region: MarR_2; cl17246 1193292014175 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1193292014176 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 1193292014177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292014178 DNA-binding site [nucleotide binding]; DNA binding site 1193292014179 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 1193292014180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292014181 homodimer interface [polypeptide binding]; other site 1193292014182 catalytic residue [active] 1193292014183 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 1193292014184 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 1193292014185 dimer interface [polypeptide binding]; other site 1193292014186 Mn binding site [ion binding]; other site 1193292014187 K binding site [ion binding]; other site 1193292014188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292014189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292014190 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 1193292014191 putative substrate binding pocket [chemical binding]; other site 1193292014192 putative dimerization interface [polypeptide binding]; other site 1193292014193 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1193292014194 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1193292014195 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292014196 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 1193292014197 TM-ABC transporter signature motif; other site 1193292014198 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 1193292014199 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292014200 TM-ABC transporter signature motif; other site 1193292014201 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1193292014202 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292014203 Walker A/P-loop; other site 1193292014204 ATP binding site [chemical binding]; other site 1193292014205 Q-loop/lid; other site 1193292014206 ABC transporter signature motif; other site 1193292014207 Walker B; other site 1193292014208 D-loop; other site 1193292014209 H-loop/switch region; other site 1193292014210 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292014211 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1193292014212 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1193292014213 ligand binding site [chemical binding]; other site 1193292014214 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1193292014215 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1193292014216 active site 1193292014217 HIGH motif; other site 1193292014218 dimer interface [polypeptide binding]; other site 1193292014219 KMSKS motif; other site 1193292014220 HlyD family secretion protein; Region: HlyD; pfam00529 1193292014221 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292014222 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292014223 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1193292014224 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1193292014225 Walker A/P-loop; other site 1193292014226 ATP binding site [chemical binding]; other site 1193292014227 Q-loop/lid; other site 1193292014228 ABC transporter signature motif; other site 1193292014229 Walker B; other site 1193292014230 D-loop; other site 1193292014231 H-loop/switch region; other site 1193292014232 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1193292014233 Walker A/P-loop; other site 1193292014234 ATP binding site [chemical binding]; other site 1193292014235 Q-loop/lid; other site 1193292014236 ABC transporter signature motif; other site 1193292014237 Walker B; other site 1193292014238 D-loop; other site 1193292014239 H-loop/switch region; other site 1193292014240 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1193292014241 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1193292014242 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1193292014243 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1193292014244 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1193292014245 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1193292014246 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1193292014247 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1193292014248 sensor kinase CusS; Provisional; Region: PRK09835 1193292014249 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 1193292014250 dimerization interface [polypeptide binding]; other site 1193292014251 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 1193292014252 dimer interface [polypeptide binding]; other site 1193292014253 phosphorylation site [posttranslational modification] 1193292014254 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 1193292014255 ATP binding site [chemical binding]; other site 1193292014256 Mg2+ binding site [ion binding]; other site 1193292014257 G-X-G motif; other site 1193292014258 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1193292014259 periplasmic copper-binding protein; Provisional; Region: PRK09838 1193292014260 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1193292014261 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292014262 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1193292014263 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1193292014264 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1193292014265 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1193292014266 transcriptional regulator MirA; Provisional; Region: PRK15043 1193292014267 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1193292014268 DNA binding residues [nucleotide binding] 1193292014269 SnoaL-like domain; Region: SnoaL_2; pfam12680 1193292014270 short chain dehydrogenase; Provisional; Region: PRK06101 1193292014271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1193292014272 NAD(P) binding site [chemical binding]; other site 1193292014273 active site 1193292014274 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1193292014275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1193292014276 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1193292014277 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1193292014278 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 1193292014279 S-adenosylmethionine binding site [chemical binding]; other site 1193292014280 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1193292014281 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1193292014282 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1193292014283 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1193292014284 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1193292014285 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1193292014286 xylose isomerase; Provisional; Region: PRK05474 1193292014287 xylose isomerase; Region: xylose_isom_A; TIGR02630 1193292014288 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1193292014289 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1193292014290 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1193292014291 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1193292014292 inhibitor binding site; inhibition site 1193292014293 active site 1193292014294 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 1193292014295 active site 1193292014296 MULE transposase domain; Region: MULE; pfam10551 1193292014297 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 1193292014298 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1193292014299 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1193292014300 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1193292014301 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1193292014302 active site 1193292014303 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1193292014304 Integrase core domain; Region: rve; pfam00665 1193292014305 Integrase core domain; Region: rve_3; pfam13683 1193292014306 Transposase; Region: HTH_Tnp_1; pfam01527 1193292014307 PAAR motif; Region: PAAR_motif; pfam05488 1193292014308 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1193292014309 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1193292014310 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 1193292014311 ATP-binding site [chemical binding]; other site 1193292014312 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 1193292014313 ATP binding site [chemical binding]; other site 1193292014314 putative Mg++ binding site [ion binding]; other site 1193292014315 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1193292014316 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 1193292014317 nucleotide binding region [chemical binding]; other site 1193292014318 ATP-binding site [chemical binding]; other site 1193292014319 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1193292014320 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1193292014321 cofactor binding site; other site 1193292014322 DNA binding site [nucleotide binding] 1193292014323 substrate interaction site [chemical binding]; other site 1193292014324 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1193292014325 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1193292014326 ParB-like nuclease domain; Region: ParBc; cl02129 1193292014327 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1193292014328 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 1193292014329 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1193292014330 DNA topoisomerase III; Provisional; Region: PRK07726 1193292014331 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1193292014332 active site 1193292014333 putative interdomain interaction site [polypeptide binding]; other site 1193292014334 putative metal-binding site [ion binding]; other site 1193292014335 putative nucleotide binding site [chemical binding]; other site 1193292014336 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 1193292014337 domain I; other site 1193292014338 DNA binding groove [nucleotide binding] 1193292014339 phosphate binding site [ion binding]; other site 1193292014340 domain II; other site 1193292014341 domain III; other site 1193292014342 nucleotide binding site [chemical binding]; other site 1193292014343 catalytic site [active] 1193292014344 domain IV; other site 1193292014345 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1193292014346 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1193292014347 putative dimer interface [polypeptide binding]; other site 1193292014348 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1193292014349 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1193292014350 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1193292014351 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1193292014352 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1193292014353 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1193292014354 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 1193292014355 Nuclease-related domain; Region: NERD; pfam08378 1193292014356 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1193292014357 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1193292014358 substrate binding site [chemical binding]; other site 1193292014359 activation loop (A-loop); other site 1193292014360 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 1193292014361 active site 1193292014362 ATP binding site [chemical binding]; other site 1193292014363 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1193292014364 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1193292014365 activation loop (A-loop); other site 1193292014366 DNA helicase, putative; Region: TIGR00376 1193292014367 Part of AAA domain; Region: AAA_19; pfam13245 1193292014368 AAA domain; Region: AAA_12; pfam13087 1193292014369 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 1193292014370 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1193292014371 conjugative transfer region protein, TIGR03750 family; Region: conj_TIGR03750 1193292014372 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1193292014373 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 1193292014374 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1193292014375 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1193292014376 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1193292014377 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1193292014378 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 1193292014379 Walker A motif; other site 1193292014380 ATP binding site [chemical binding]; other site 1193292014381 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 1193292014382 non-specific DNA binding site [nucleotide binding]; other site 1193292014383 salt bridge; other site 1193292014384 sequence-specific DNA binding site [nucleotide binding]; other site 1193292014385 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 1193292014386 Phosphotransferase system sorbitol-specific component IIC [Carbohydrate transport and metabolism]; Region: SrlA; COG3730 1193292014387 Phosphotransferase system sorbitol-specific component IIA [Carbohydrate transport and metabolism]; Region: SrlB; COG3731 1193292014388 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1193292014389 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1193292014390 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1193292014391 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292014392 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292014393 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292014394 Fimbrial protein; Region: Fimbrial; cl01416 1193292014395 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1193292014396 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292014397 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292014398 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292014399 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1193292014400 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292014401 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292014402 Fimbrial protein; Region: Fimbrial; cl01416 1193292014403 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1193292014404 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1193292014405 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1193292014406 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1193292014407 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1193292014408 RES domain; Region: RES; pfam08808 1193292014409 Putative helicase; Region: TraI_2; pfam07514 1193292014410 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1193292014411 Zn2+ binding site [ion binding]; other site 1193292014412 Mg2+ binding site [ion binding]; other site 1193292014413 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1193292014414 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1193292014415 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1193292014416 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1193292014417 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 1193292014418 putative active site [active] 1193292014419 putative metal-binding site [ion binding]; other site 1193292014420 Part of AAA domain; Region: AAA_19; pfam13245 1193292014421 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1193292014422 Family description; Region: UvrD_C_2; pfam13538 1193292014423 Restriction endonuclease; Region: Mrr_cat; pfam04471 1193292014424 integrase; Provisional; Region: PRK09692 1193292014425 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1193292014426 active site 1193292014427 Int/Topo IB signature motif; other site 1193292014428 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_cladeA; cd00883 1193292014429 active site clefts [active] 1193292014430 zinc binding site [ion binding]; other site 1193292014431 dimer interface [polypeptide binding]; other site 1193292014432 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1193292014433 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1193292014434 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1193292014435 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1193292014436 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1193292014437 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1193292014438 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1193292014439 putative NAD(P) binding site [chemical binding]; other site 1193292014440 putative substrate binding site [chemical binding]; other site 1193292014441 catalytic Zn binding site [ion binding]; other site 1193292014442 structural Zn binding site [ion binding]; other site 1193292014443 dimer interface [polypeptide binding]; other site 1193292014444 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 1193292014445 dimer interface [polypeptide binding]; other site 1193292014446 conserved gate region; other site 1193292014447 putative PBP binding loops; other site 1193292014448 ABC-ATPase subunit interface; other site 1193292014449 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1193292014450 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 1193292014451 dimer interface [polypeptide binding]; other site 1193292014452 conserved gate region; other site 1193292014453 putative PBP binding loops; other site 1193292014454 ABC-ATPase subunit interface; other site 1193292014455 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1193292014456 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1193292014457 active site 1193292014458 metal binding site [ion binding]; metal-binding site 1193292014459 hexamer interface [polypeptide binding]; other site 1193292014460 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1193292014461 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1193292014462 Walker A/P-loop; other site 1193292014463 ATP binding site [chemical binding]; other site 1193292014464 Q-loop/lid; other site 1193292014465 ABC transporter signature motif; other site 1193292014466 Walker B; other site 1193292014467 D-loop; other site 1193292014468 H-loop/switch region; other site 1193292014469 TOBE domain; Region: TOBE_2; pfam08402 1193292014470 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1193292014471 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1193292014472 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1193292014473 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1193292014474 Metal-binding active site; metal-binding site 1193292014475 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1193292014476 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1193292014477 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1193292014478 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1193292014479 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1193292014480 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1193292014481 PYR/PP interface [polypeptide binding]; other site 1193292014482 dimer interface [polypeptide binding]; other site 1193292014483 TPP binding site [chemical binding]; other site 1193292014484 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1193292014485 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1193292014486 TPP-binding site; other site 1193292014487 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292014488 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1193292014489 substrate binding site [chemical binding]; other site 1193292014490 ATP binding site [chemical binding]; other site 1193292014491 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1193292014492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1193292014493 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1193292014494 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292014495 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1193292014496 putative active site [active] 1193292014497 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1193292014498 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1193292014499 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1193292014500 tetrameric interface [polypeptide binding]; other site 1193292014501 NAD binding site [chemical binding]; other site 1193292014502 catalytic residues [active] 1193292014503 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 1193292014504 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1193292014505 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1193292014506 Walker A motif; other site 1193292014507 ATP binding site [chemical binding]; other site 1193292014508 Walker B motif; other site 1193292014509 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1193292014510 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1193292014511 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 1193292014512 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1193292014513 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1193292014514 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 1193292014515 interface (dimer of trimers) [polypeptide binding]; other site 1193292014516 Substrate-binding/catalytic site; other site 1193292014517 Zn-binding sites [ion binding]; other site 1193292014518 DNA polymerase III subunit chi; Validated; Region: PRK05728 1193292014519 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1193292014520 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1193292014521 HIGH motif; other site 1193292014522 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1193292014523 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1193292014524 active site 1193292014525 KMSKS motif; other site 1193292014526 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1193292014527 tRNA binding surface [nucleotide binding]; other site 1193292014528 anticodon binding site; other site 1193292014529 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1193292014530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292014531 Coenzyme A binding pocket [chemical binding]; other site 1193292014532 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1193292014533 active site 1193292014534 dinuclear metal binding site [ion binding]; other site 1193292014535 dimerization interface [polypeptide binding]; other site 1193292014536 RNase E inhibitor protein; Provisional; Region: PRK11191 1193292014537 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 1193292014538 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1193292014539 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1193292014540 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1193292014541 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 1193292014542 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1193292014543 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1193292014544 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1193292014545 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 1193292014546 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 1193292014547 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1193292014548 homotrimer interaction site [polypeptide binding]; other site 1193292014549 putative active site [active] 1193292014550 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 1193292014551 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1193292014552 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1193292014553 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1193292014554 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 1193292014555 motif II; other site 1193292014556 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1193292014557 trehalose repressor; Provisional; Region: treR; PRK09492 1193292014558 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292014559 DNA binding site [nucleotide binding] 1193292014560 domain linker motif; other site 1193292014561 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 1193292014562 dimerization interface [polypeptide binding]; other site 1193292014563 ligand binding site [chemical binding]; other site 1193292014564 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 1193292014565 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 1193292014566 active site turn [active] 1193292014567 phosphorylation site [posttranslational modification] 1193292014568 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1193292014569 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 1193292014570 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1193292014571 Ca binding site [ion binding]; other site 1193292014572 active site 1193292014573 catalytic site [active] 1193292014574 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1193292014575 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1193292014576 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1193292014577 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1193292014578 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1193292014579 NAD binding site [chemical binding]; other site 1193292014580 sugar binding site [chemical binding]; other site 1193292014581 divalent metal binding site [ion binding]; other site 1193292014582 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292014583 dimer interface [polypeptide binding]; other site 1193292014584 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1193292014585 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1193292014586 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1193292014587 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1193292014588 putative active site [active] 1193292014589 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1193292014590 ATP cone domain; Region: ATP-cone; pfam03477 1193292014591 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1193292014592 effector binding site; other site 1193292014593 active site 1193292014594 Zn binding site [ion binding]; other site 1193292014595 glycine loop; other site 1193292014596 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1193292014597 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 1193292014598 FeS/SAM binding site; other site 1193292014599 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1193292014600 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 1193292014601 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1193292014602 HTH domain; Region: HTH_11; pfam08279 1193292014603 Mga helix-turn-helix domain; Region: Mga; pfam05043 1193292014604 PRD domain; Region: PRD; pfam00874 1193292014605 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1193292014606 active site 1193292014607 P-loop; other site 1193292014608 phosphorylation site [posttranslational modification] 1193292014609 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 1193292014610 active site 1193292014611 phosphorylation site [posttranslational modification] 1193292014612 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1193292014613 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 1193292014614 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 1193292014615 dihydroorotase; Provisional; Region: PRK09237 1193292014616 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 1193292014617 active site 1193292014618 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 1193292014619 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 1193292014620 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 1193292014621 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; cl11916 1193292014622 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 1193292014623 Cytochrome b562; Region: Cytochrom_B562; cl01546 1193292014624 peptidase PmbA; Provisional; Region: PRK11040 1193292014625 hypothetical protein; Provisional; Region: PRK05255 1193292014626 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 1193292014627 active site 1193292014628 catalytic residues [active] 1193292014629 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1193292014630 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292014631 Coenzyme A binding pocket [chemical binding]; other site 1193292014632 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1193292014633 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1193292014634 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1193292014635 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1193292014636 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1193292014637 AMP binding site [chemical binding]; other site 1193292014638 metal binding site [ion binding]; metal-binding site 1193292014639 active site 1193292014640 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292014641 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 1193292014642 TM-ABC transporter signature motif; other site 1193292014643 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292014644 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 1193292014645 TM-ABC transporter signature motif; other site 1193292014646 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1193292014647 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292014648 Walker A/P-loop; other site 1193292014649 ATP binding site [chemical binding]; other site 1193292014650 Q-loop/lid; other site 1193292014651 ABC transporter signature motif; other site 1193292014652 Walker B; other site 1193292014653 D-loop; other site 1193292014654 H-loop/switch region; other site 1193292014655 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292014656 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1193292014657 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1193292014658 putative ligand binding site [chemical binding]; other site 1193292014659 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 1193292014660 dimer interface [polypeptide binding]; other site 1193292014661 substrate binding site [chemical binding]; other site 1193292014662 metal binding sites [ion binding]; metal-binding site 1193292014663 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1193292014664 dimerization interface [polypeptide binding]; other site 1193292014665 putative active site pocket [active] 1193292014666 putative catalytic residue [active] 1193292014667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1193292014668 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1193292014669 Family of unknown function (DUF490); Region: DUF490; pfam04357 1193292014670 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1193292014671 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292014672 Surface antigen; Region: Bac_surface_Ag; pfam01103 1193292014673 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1193292014674 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1193292014675 Domain of unknown function DUF21; Region: DUF21; pfam01595 1193292014676 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 1193292014677 Transporter associated domain; Region: CorC_HlyC; smart01091 1193292014678 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 1193292014679 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 1193292014680 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 1193292014681 active site 1193292014682 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1193292014683 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1193292014684 active site 1193292014685 metal binding site [ion binding]; metal-binding site 1193292014686 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1193292014687 Predicted transcriptional regulators [Transcription]; Region: COG1733 1193292014688 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1193292014689 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1193292014690 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1193292014691 NADP binding site [chemical binding]; other site 1193292014692 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1193292014693 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1193292014694 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292014695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292014696 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1193292014697 EamA-like transporter family; Region: EamA; pfam00892 1193292014698 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1193292014699 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1193292014700 Hemerythrin-like domain; Region: Hr-like; cd12108 1193292014701 Fe binding site [ion binding]; other site 1193292014702 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1193292014703 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 1193292014704 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1193292014705 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1193292014706 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 1193292014707 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1193292014708 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1193292014709 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1193292014710 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1193292014711 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1193292014712 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1193292014713 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1193292014714 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292014715 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 1193292014716 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1193292014717 putative substrate translocation pore; other site 1193292014718 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1193292014719 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1193292014720 intersubunit interface [polypeptide binding]; other site 1193292014721 active site 1193292014722 Zn2+ binding site [ion binding]; other site 1193292014723 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 1193292014724 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1193292014725 AP (apurinic/apyrimidinic) site pocket; other site 1193292014726 DNA interaction; other site 1193292014727 Metal-binding active site; metal-binding site 1193292014728 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1193292014729 active site 1193292014730 dimer interface [polypeptide binding]; other site 1193292014731 magnesium binding site [ion binding]; other site 1193292014732 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 1193292014733 active site 1193292014734 phosphorylation site [posttranslational modification] 1193292014735 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 1193292014736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1193292014737 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1193292014738 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1193292014739 transcriptional repressor UlaR; Provisional; Region: PRK13509 1193292014740 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1193292014741 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1193292014742 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 1193292014743 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1193292014744 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1193292014745 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1193292014746 active site 1193292014747 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1193292014748 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1193292014749 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1193292014750 exoribonuclease R; Provisional; Region: PRK11642 1193292014751 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1193292014752 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1193292014753 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 1193292014754 RNB domain; Region: RNB; pfam00773 1193292014755 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1193292014756 RNA binding site [nucleotide binding]; other site 1193292014757 Predicted transcriptional regulator [Transcription]; Region: COG1959 1193292014758 transcriptional repressor NsrR; Provisional; Region: PRK11014 1193292014759 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1193292014760 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 1193292014761 GDP-binding site [chemical binding]; other site 1193292014762 ACT binding site; other site 1193292014763 IMP binding site; other site 1193292014764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1193292014765 FtsH protease regulator HflC; Provisional; Region: PRK11029 1193292014766 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1193292014767 FtsH protease regulator HflK; Provisional; Region: PRK10930 1193292014768 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1193292014769 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1193292014770 GTPase HflX; Provisional; Region: PRK11058 1193292014771 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1193292014772 HflX GTPase family; Region: HflX; cd01878 1193292014773 G1 box; other site 1193292014774 GTP/Mg2+ binding site [chemical binding]; other site 1193292014775 Switch I region; other site 1193292014776 G2 box; other site 1193292014777 G3 box; other site 1193292014778 Switch II region; other site 1193292014779 G4 box; other site 1193292014780 G5 box; other site 1193292014781 bacterial Hfq-like; Region: Hfq; cd01716 1193292014782 hexamer interface [polypeptide binding]; other site 1193292014783 Sm1 motif; other site 1193292014784 RNA binding site [nucleotide binding]; other site 1193292014785 Sm2 motif; other site 1193292014786 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1193292014787 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1193292014788 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1193292014789 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 1193292014790 ATP binding site [chemical binding]; other site 1193292014791 Mg2+ binding site [ion binding]; other site 1193292014792 G-X-G motif; other site 1193292014793 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1193292014794 ATP binding site [chemical binding]; other site 1193292014795 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1193292014796 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1193292014797 AMIN domain; Region: AMIN; pfam11741 1193292014798 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 1193292014799 active site 1193292014800 metal binding site [ion binding]; metal-binding site 1193292014801 ADP-binding protein; Provisional; Region: PRK10646 1193292014802 putative carbohydrate kinase; Provisional; Region: PRK10565 1193292014803 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1193292014804 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 1193292014805 putative substrate binding site [chemical binding]; other site 1193292014806 putative ATP binding site [chemical binding]; other site 1193292014807 epoxyqueuosine reductase; Region: TIGR00276 1193292014808 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1193292014809 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1193292014810 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 1193292014811 substrate binding pocket [chemical binding]; other site 1193292014812 membrane-bound complex binding site; other site 1193292014813 hinge residues; other site 1193292014814 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1193292014815 catalytic site [active] 1193292014816 putative active site [active] 1193292014817 putative substrate binding site [chemical binding]; other site 1193292014818 dimer interface [polypeptide binding]; other site 1193292014819 GTPase RsgA; Reviewed; Region: PRK12288 1193292014820 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 1193292014821 RNA binding site [nucleotide binding]; other site 1193292014822 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1193292014823 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1193292014824 GTP/Mg2+ binding site [chemical binding]; other site 1193292014825 G4 box; other site 1193292014826 G5 box; other site 1193292014827 G1 box; other site 1193292014828 Switch I region; other site 1193292014829 G2 box; other site 1193292014830 G3 box; other site 1193292014831 Switch II region; other site 1193292014832 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1193292014833 putative mechanosensitive channel protein; Provisional; Region: PRK10929 1193292014834 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 1193292014835 putative YPXnL-motif binding site; other site 1193292014836 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1193292014837 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1193292014838 inner membrane transporter YjeM; Provisional; Region: PRK15238 1193292014839 poxB regulator PoxA; Provisional; Region: PRK09350 1193292014840 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 1193292014841 motif 1; other site 1193292014842 dimer interface [polypeptide binding]; other site 1193292014843 active site 1193292014844 motif 2; other site 1193292014845 motif 3; other site 1193292014846 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1193292014847 L-aspartate oxidase; Provisional; Region: PRK06175 1193292014848 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1193292014849 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1193292014850 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1193292014851 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1193292014852 D-subunit interface [polypeptide binding]; other site 1193292014853 Iron-sulfur protein interface; other site 1193292014854 proximal quinone binding site [chemical binding]; other site 1193292014855 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1193292014856 Iron-sulfur protein interface; other site 1193292014857 proximal quinone binding site [chemical binding]; other site 1193292014858 C-subunit interface; other site 1193292014859 distal quinone binding site; other site 1193292014860 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1193292014861 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1193292014862 multidrug efflux system protein; Provisional; Region: PRK11431 1193292014863 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 1193292014864 Predicted small secreted protein [Function unknown]; Region: COG5510 1193292014865 elongation factor P; Validated; Region: PRK00529 1193292014866 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1193292014867 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 1193292014868 RNA binding site [nucleotide binding]; other site 1193292014869 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 1193292014870 RNA binding site [nucleotide binding]; other site 1193292014871 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 1193292014872 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1193292014873 FeS/SAM binding site; other site 1193292014874 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 1193292014875 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1193292014876 DNA binding site [nucleotide binding] 1193292014877 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292014878 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1193292014879 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292014880 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292014881 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1193292014882 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292014883 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292014884 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292014885 putative major fimbrial protein SthE; Provisional; Region: PRK15292 1193292014886 Fimbrial protein; Region: Fimbrial; pfam00419 1193292014887 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1193292014888 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1193292014889 HlyD family secretion protein; Region: HlyD_3; pfam13437 1193292014890 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1193292014891 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1193292014892 putative active site [active] 1193292014893 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1193292014894 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1193292014895 Walker A/P-loop; other site 1193292014896 ATP binding site [chemical binding]; other site 1193292014897 Q-loop/lid; other site 1193292014898 ABC transporter signature motif; other site 1193292014899 Walker B; other site 1193292014900 D-loop; other site 1193292014901 H-loop/switch region; other site 1193292014902 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 1193292014903 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1193292014904 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 1193292014905 ring oligomerisation interface [polypeptide binding]; other site 1193292014906 ATP/Mg binding site [chemical binding]; other site 1193292014907 stacking interactions; other site 1193292014908 hinge regions; other site 1193292014909 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 1193292014910 oligomerisation interface [polypeptide binding]; other site 1193292014911 mobile loop; other site 1193292014912 roof hairpin; other site 1193292014913 putative transporter; Provisional; Region: PRK11021 1193292014914 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1193292014915 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1193292014916 Aspartase; Region: Aspartase; cd01357 1193292014917 active sites [active] 1193292014918 tetramer interface [polypeptide binding]; other site 1193292014919 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1193292014920 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1193292014921 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 1193292014922 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1193292014923 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1193292014924 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1193292014925 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1193292014926 DsbD alpha interface [polypeptide binding]; other site 1193292014927 catalytic residues [active] 1193292014928 putative transcriptional regulator; Provisional; Region: PRK11640 1193292014929 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1193292014930 PerC transcriptional activator; Region: PerC; pfam06069 1193292014931 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; cl17315 1193292014932 dimerization interface [polypeptide binding]; other site 1193292014933 DNA binding residues [nucleotide binding] 1193292014934 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 1193292014935 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 1193292014936 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 1193292014937 putative active site [active] 1193292014938 putative metal binding site [ion binding]; other site 1193292014939 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1193292014940 N-glycosyltransferase; Provisional; Region: PRK11204 1193292014941 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1193292014942 DXD motif; other site 1193292014943 hemin storage system protein; Provisional; Region: hmsS; PRK14584 1193292014944 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1193292014945 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1193292014946 catalytic residues [active] 1193292014947 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1193292014948 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1193292014949 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 1193292014950 HSP70 interaction site [polypeptide binding]; other site 1193292014951 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1193292014952 substrate binding site [polypeptide binding]; other site 1193292014953 dimer interface [polypeptide binding]; other site 1193292014954 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1193292014955 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1193292014956 Plasmid stability protein; Region: Plasmid_stab_B; pfam10784 1193292014957 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1193292014958 PRTRC system protein D; Region: PRTRC_D; TIGR03739 1193292014959 Mg binding site [ion binding]; other site 1193292014960 nucleotide binding site [chemical binding]; other site 1193292014961 putative protofilament interface [polypeptide binding]; other site 1193292014962 melibiose:sodium symporter; Provisional; Region: PRK10429 1193292014963 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1193292014964 alpha-galactosidase; Provisional; Region: PRK15076 1193292014965 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1193292014966 NAD binding site [chemical binding]; other site 1193292014967 sugar binding site [chemical binding]; other site 1193292014968 divalent metal binding site [ion binding]; other site 1193292014969 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292014970 dimer interface [polypeptide binding]; other site 1193292014971 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 1193292014972 Cupin domain; Region: Cupin_2; cl17218 1193292014973 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292014974 proline/glycine betaine transporter; Provisional; Region: PRK10642 1193292014975 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 1193292014976 putative substrate translocation pore; other site 1193292014977 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 1193292014978 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1193292014979 PhnA protein; Region: PhnA; pfam03831 1193292014980 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 1193292014981 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1193292014982 dimer interface [polypeptide binding]; other site 1193292014983 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 1193292014984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292014985 DNA-binding site [nucleotide binding]; DNA binding site 1193292014986 UTRA domain; Region: UTRA; pfam07702 1193292014987 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1193292014988 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 1193292014989 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1193292014990 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 1193292014991 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1193292014992 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1193292014993 Walker A/P-loop; other site 1193292014994 ATP binding site [chemical binding]; other site 1193292014995 Q-loop/lid; other site 1193292014996 ABC transporter signature motif; other site 1193292014997 Walker B; other site 1193292014998 D-loop; other site 1193292014999 H-loop/switch region; other site 1193292015000 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1193292015001 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1193292015002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292015003 Walker A/P-loop; other site 1193292015004 ATP binding site [chemical binding]; other site 1193292015005 Q-loop/lid; other site 1193292015006 ABC transporter signature motif; other site 1193292015007 Walker B; other site 1193292015008 D-loop; other site 1193292015009 H-loop/switch region; other site 1193292015010 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1193292015011 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 1193292015012 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1193292015013 active site 1193292015014 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 1193292015015 active site 1193292015016 putative hydrolase; Provisional; Region: PRK02113 1193292015017 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 1193292015018 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 1193292015019 dimerization interface [polypeptide binding]; other site 1193292015020 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 1193292015021 dimer interface [polypeptide binding]; other site 1193292015022 phosphorylation site [posttranslational modification] 1193292015023 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 1193292015024 ATP binding site [chemical binding]; other site 1193292015025 Mg2+ binding site [ion binding]; other site 1193292015026 G-X-G motif; other site 1193292015027 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 1193292015028 active site 1193292015029 phosphorylation site [posttranslational modification] 1193292015030 intermolecular recognition site; other site 1193292015031 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1193292015032 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292015033 Walker A/P-loop; other site 1193292015034 ATP binding site [chemical binding]; other site 1193292015035 Q-loop/lid; other site 1193292015036 ABC transporter signature motif; other site 1193292015037 Walker B; other site 1193292015038 D-loop; other site 1193292015039 H-loop/switch region; other site 1193292015040 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292015041 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292015042 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 1193292015043 TM-ABC transporter signature motif; other site 1193292015044 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1193292015045 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1193292015046 putative ligand binding site [chemical binding]; other site 1193292015047 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1193292015048 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292015049 substrate binding site [chemical binding]; other site 1193292015050 ATP binding site [chemical binding]; other site 1193292015051 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1193292015052 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 1193292015053 active site 1193292015054 phosphorylation site [posttranslational modification] 1193292015055 intermolecular recognition site; other site 1193292015056 dimerization interface [polypeptide binding]; other site 1193292015057 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 1193292015058 DNA binding site [nucleotide binding] 1193292015059 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1193292015060 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1193292015061 [4Fe-4S] binding site [ion binding]; other site 1193292015062 molybdopterin cofactor binding site; other site 1193292015063 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 1193292015064 molybdopterin cofactor binding site; other site 1193292015065 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1193292015066 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1193292015067 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1193292015068 acetyl-CoA synthetase; Provisional; Region: PRK00174 1193292015069 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1193292015070 active site 1193292015071 CoA binding site [chemical binding]; other site 1193292015072 acyl-activating enzyme (AAE) consensus motif; other site 1193292015073 AMP binding site [chemical binding]; other site 1193292015074 acetate binding site [chemical binding]; other site 1193292015075 Predicted membrane protein [Function unknown]; Region: COG3162 1193292015076 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1193292015077 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1193292015078 Na binding site [ion binding]; other site 1193292015079 putative major fimbrial protein SthE; Provisional; Region: PRK15292 1193292015080 Fimbrial protein; Region: Fimbrial; cl01416 1193292015081 Fimbrial protein; Region: Fimbrial; cl01416 1193292015082 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1193292015083 PapC N-terminal domain; Region: PapC_N; pfam13954 1193292015084 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1193292015085 PapC C-terminal domain; Region: PapC_C; pfam13953 1193292015086 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 1193292015087 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1193292015088 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1193292015089 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1193292015090 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1193292015091 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1193292015092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292015093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292015094 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1193292015095 putative dimerization interface [polypeptide binding]; other site 1193292015096 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1193292015097 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1193292015098 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1193292015099 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1193292015100 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1193292015101 putative C-terminal domain interface [polypeptide binding]; other site 1193292015102 putative GSH binding site (G-site) [chemical binding]; other site 1193292015103 putative dimer interface [polypeptide binding]; other site 1193292015104 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1193292015105 putative N-terminal domain interface [polypeptide binding]; other site 1193292015106 putative dimer interface [polypeptide binding]; other site 1193292015107 putative substrate binding pocket (H-site) [chemical binding]; other site 1193292015108 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 1193292015109 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1193292015110 DNA binding residues [nucleotide binding] 1193292015111 dimer interface [polypeptide binding]; other site 1193292015112 [2Fe-2S] cluster binding site [ion binding]; other site 1193292015113 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1193292015114 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292015115 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1193292015116 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1193292015117 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1193292015118 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1193292015119 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 1193292015120 dimer interface [polypeptide binding]; other site 1193292015121 conserved gate region; other site 1193292015122 putative PBP binding loops; other site 1193292015123 ABC-ATPase subunit interface; other site 1193292015124 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 1193292015125 dimer interface [polypeptide binding]; other site 1193292015126 conserved gate region; other site 1193292015127 putative PBP binding loops; other site 1193292015128 ABC-ATPase subunit interface; other site 1193292015129 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1193292015130 hypothetical protein; Provisional; Region: PRK11622 1193292015131 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1193292015132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1193292015133 Walker A/P-loop; other site 1193292015134 ATP binding site [chemical binding]; other site 1193292015135 Q-loop/lid; other site 1193292015136 ABC transporter signature motif; other site 1193292015137 Walker B; other site 1193292015138 D-loop; other site 1193292015139 H-loop/switch region; other site 1193292015140 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1193292015141 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292015142 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1193292015143 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_2; cd06278 1193292015144 putative dimerization interface [polypeptide binding]; other site 1193292015145 putative ligand binding site [chemical binding]; other site 1193292015146 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1193292015147 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 1193292015148 active site 1193292015149 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1193292015150 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292015151 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292015152 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292015153 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292015154 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1193292015155 Surface antigen; Region: Bac_surface_Ag; pfam01103 1193292015156 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1193292015157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292015158 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292015159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292015160 outer membrane receptor FepA; Provisional; Region: PRK13524 1193292015161 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1193292015162 N-terminal plug; other site 1193292015163 ligand-binding site [chemical binding]; other site 1193292015164 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1193292015165 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 1193292015166 substrate binding pocket [chemical binding]; other site 1193292015167 membrane-bound complex binding site; other site 1193292015168 hinge residues; other site 1193292015169 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 1193292015170 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1193292015171 catalytic residue [active] 1193292015172 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1193292015173 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 1193292015174 dimer interface [polypeptide binding]; other site 1193292015175 ssDNA binding site [nucleotide binding]; other site 1193292015176 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1193292015177 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1193292015178 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1193292015179 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1193292015180 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1193292015181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1193292015182 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1193292015183 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 1193292015184 active site 1193292015185 motif I; other site 1193292015186 motif II; other site 1193292015187 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1193292015188 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 1193292015189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292015190 homodimer interface [polypeptide binding]; other site 1193292015191 catalytic residue [active] 1193292015192 alanine racemase; Reviewed; Region: alr; PRK00053 1193292015193 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1193292015194 active site 1193292015195 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1193292015196 substrate binding site [chemical binding]; other site 1193292015197 catalytic residues [active] 1193292015198 dimer interface [polypeptide binding]; other site 1193292015199 replicative DNA helicase; Provisional; Region: PRK08006 1193292015200 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1193292015201 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 1193292015202 Walker A motif; other site 1193292015203 ATP binding site [chemical binding]; other site 1193292015204 Walker B motif; other site 1193292015205 DNA binding loops [nucleotide binding] 1193292015206 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1193292015207 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1193292015208 NADP binding site [chemical binding]; other site 1193292015209 dimer interface [polypeptide binding]; other site 1193292015210 phage shock protein G; Reviewed; Region: pspG; PRK09459 1193292015211 Cupin domain; Region: Cupin_2; cl17218 1193292015212 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1193292015213 metal binding site 2 [ion binding]; metal-binding site 1193292015214 putative DNA binding helix; other site 1193292015215 metal binding site 1 [ion binding]; metal-binding site 1193292015216 dimer interface [polypeptide binding]; other site 1193292015217 structural Zn2+ binding site [ion binding]; other site 1193292015218 hypothetical protein; Provisional; Region: PRK10428 1193292015219 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1193292015220 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1193292015221 LexA repressor; Validated; Region: PRK00215 1193292015222 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1193292015223 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 1193292015224 Catalytic site [active] 1193292015225 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1193292015226 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1193292015227 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1193292015228 putative acyl-acceptor binding pocket; other site 1193292015229 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1193292015230 UbiA prenyltransferase family; Region: UbiA; pfam01040 1193292015231 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 1193292015232 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1193292015233 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1193292015234 trimer interface; other site 1193292015235 sugar binding site [chemical binding]; other site 1193292015236 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1193292015237 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1193292015238 Walker A/P-loop; other site 1193292015239 ATP binding site [chemical binding]; other site 1193292015240 Q-loop/lid; other site 1193292015241 ABC transporter signature motif; other site 1193292015242 Walker B; other site 1193292015243 D-loop; other site 1193292015244 H-loop/switch region; other site 1193292015245 TOBE domain; Region: TOBE_2; pfam08402 1193292015246 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1193292015247 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1193292015248 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 1193292015249 dimer interface [polypeptide binding]; other site 1193292015250 conserved gate region; other site 1193292015251 putative PBP binding loops; other site 1193292015252 ABC-ATPase subunit interface; other site 1193292015253 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1193292015254 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 1193292015255 dimer interface [polypeptide binding]; other site 1193292015256 conserved gate region; other site 1193292015257 putative PBP binding loops; other site 1193292015258 ABC-ATPase subunit interface; other site 1193292015259 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1193292015260 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1193292015261 AzlC protein; Region: AzlC; pfam03591 1193292015262 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1193292015263 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1193292015264 homotrimer interaction site [polypeptide binding]; other site 1193292015265 putative active site [active] 1193292015266 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292015267 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1193292015268 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1193292015269 putative trimer interface [polypeptide binding]; other site 1193292015270 putative active site [active] 1193292015271 putative substrate binding site [chemical binding]; other site 1193292015272 putative CoA binding site [chemical binding]; other site 1193292015273 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1193292015274 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 1193292015275 active site 1193292015276 dimer interface [polypeptide binding]; other site 1193292015277 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 1193292015278 dimer interface [polypeptide binding]; other site 1193292015279 active site 1193292015280 aspartate kinase III; Validated; Region: PRK09084 1193292015281 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1193292015282 nucleotide binding site [chemical binding]; other site 1193292015283 substrate binding site [chemical binding]; other site 1193292015284 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1193292015285 lysine allosteric regulatory site; other site 1193292015286 dimer interface [polypeptide binding]; other site 1193292015287 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1193292015288 dimer interface [polypeptide binding]; other site 1193292015289 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1193292015290 Sodium Bile acid symporter family; Region: SBF; pfam01758 1193292015291 hypothetical protein; Provisional; Region: PRK10515 1193292015292 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 1193292015293 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 1193292015294 RNA binding surface [nucleotide binding]; other site 1193292015295 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1193292015296 probable active site [active] 1193292015297 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1193292015298 active site pocket [active] 1193292015299 oxyanion hole [active] 1193292015300 catalytic triad [active] 1193292015301 active site nucleophile [active] 1193292015302 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1193292015303 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1193292015304 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1193292015305 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1193292015306 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 1193292015307 substrate binding pocket [chemical binding]; other site 1193292015308 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 1193292015309 B12 binding site [chemical binding]; other site 1193292015310 cobalt ligand [ion binding]; other site 1193292015311 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1193292015312 transcriptional repressor IclR; Provisional; Region: PRK11569 1193292015313 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1193292015314 Bacterial transcriptional regulator; Region: IclR; pfam01614 1193292015315 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1193292015316 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1193292015317 isocitrate lyase; Provisional; Region: PRK15063 1193292015318 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1193292015319 tetramer interface [polypeptide binding]; other site 1193292015320 active site 1193292015321 Mg2+/Mn2+ binding site [ion binding]; other site 1193292015322 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 1193292015323 malate synthase A; Region: malate_syn_A; TIGR01344 1193292015324 active site 1193292015325 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1193292015326 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1193292015327 proposed active site lysine [active] 1193292015328 conserved cys residue [active] 1193292015329 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1193292015330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292015331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1193292015332 Coenzyme A binding pocket [chemical binding]; other site 1193292015333 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1193292015334 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 1193292015335 purine monophosphate binding site [chemical binding]; other site 1193292015336 dimer interface [polypeptide binding]; other site 1193292015337 putative catalytic residues [active] 1193292015338 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1193292015339 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1193292015340 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1193292015341 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1193292015342 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1193292015343 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1193292015344 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 1193292015345 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 1193292015346 active site 1193292015347 phosphorylation site [posttranslational modification] 1193292015348 intermolecular recognition site; other site 1193292015349 dimerization interface [polypeptide binding]; other site 1193292015350 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 1193292015351 Walker A motif; other site 1193292015352 ATP binding site [chemical binding]; other site 1193292015353 Walker B motif; other site 1193292015354 arginine finger; other site 1193292015355 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1193292015356 sensor protein ZraS; Provisional; Region: PRK10364 1193292015357 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 1193292015358 dimer interface [polypeptide binding]; other site 1193292015359 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 1193292015360 ATP binding site [chemical binding]; other site 1193292015361 Mg2+ binding site [ion binding]; other site 1193292015362 G-X-G motif; other site 1193292015363 zinc resistance protein; Provisional; Region: zraP; PRK11546 1193292015364 dimer interface [polypeptide binding]; other site 1193292015365 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 1193292015366 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1193292015367 IHF dimer interface [polypeptide binding]; other site 1193292015368 IHF - DNA interface [nucleotide binding]; other site 1193292015369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 1193292015370 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1193292015371 Active_site [active] 1193292015372 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 1193292015373 substrate binding site [chemical binding]; other site 1193292015374 active site 1193292015375 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1193292015376 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1193292015377 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1193292015378 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 1193292015379 putative NADH binding site [chemical binding]; other site 1193292015380 putative active site [active] 1193292015381 nudix motif; other site 1193292015382 putative metal binding site [ion binding]; other site 1193292015383 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1193292015384 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1193292015385 ThiC-associated domain; Region: ThiC-associated; pfam13667 1193292015386 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1193292015387 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1193292015388 thiamine phosphate binding site [chemical binding]; other site 1193292015389 active site 1193292015390 pyrophosphate binding site [ion binding]; other site 1193292015391 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1193292015392 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 1193292015393 ATP binding site [chemical binding]; other site 1193292015394 substrate interface [chemical binding]; other site 1193292015395 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1193292015396 thiS-thiF/thiG interaction site; other site 1193292015397 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1193292015398 ThiS interaction site; other site 1193292015399 putative active site [active] 1193292015400 tetramer interface [polypeptide binding]; other site 1193292015401 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1193292015402 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 1193292015403 FeS/SAM binding site; other site 1193292015404 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1193292015405 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1193292015406 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1193292015407 metal binding site [ion binding]; metal-binding site 1193292015408 active site 1193292015409 I-site; other site 1193292015410 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1193292015411 active site 1193292015412 P-loop; other site 1193292015413 phosphorylation site [posttranslational modification] 1193292015414 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1193292015415 methionine cluster; other site 1193292015416 active site 1193292015417 phosphorylation site [posttranslational modification] 1193292015418 metal binding site [ion binding]; metal-binding site 1193292015419 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1193292015420 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1193292015421 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1193292015422 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1193292015423 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1193292015424 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1193292015425 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1193292015426 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1193292015427 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1193292015428 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1193292015429 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1193292015430 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1193292015431 DNA binding site [nucleotide binding] 1193292015432 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1193292015433 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1193292015434 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 1193292015435 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1193292015436 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 1193292015437 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1193292015438 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 1193292015439 RPB3 interaction site [polypeptide binding]; other site 1193292015440 RPB1 interaction site [polypeptide binding]; other site 1193292015441 RPB11 interaction site [polypeptide binding]; other site 1193292015442 RPB10 interaction site [polypeptide binding]; other site 1193292015443 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1193292015444 core dimer interface [polypeptide binding]; other site 1193292015445 peripheral dimer interface [polypeptide binding]; other site 1193292015446 L10 interface [polypeptide binding]; other site 1193292015447 L11 interface [polypeptide binding]; other site 1193292015448 putative EF-Tu interaction site [polypeptide binding]; other site 1193292015449 putative EF-G interaction site [polypeptide binding]; other site 1193292015450 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 1193292015451 23S rRNA interface [nucleotide binding]; other site 1193292015452 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1193292015453 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 1193292015454 mRNA/rRNA interface [nucleotide binding]; other site 1193292015455 Ribosomal protein L11/L12; Region: RL11; smart00649 1193292015456 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 1193292015457 putative thiostrepton binding site; other site 1193292015458 23S rRNA interface [nucleotide binding]; other site 1193292015459 L7/L12 interface [polypeptide binding]; other site 1193292015460 L25 interface [polypeptide binding]; other site 1193292015461 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1193292015462 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1193292015463 putative homodimer interface [polypeptide binding]; other site 1193292015464 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1193292015465 heterodimer interface [polypeptide binding]; other site 1193292015466 homodimer interface [polypeptide binding]; other site 1193292015467 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1193292015468 elongation factor Tu; Reviewed; Region: PRK00049 1193292015469 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1193292015470 G1 box; other site 1193292015471 GEF interaction site [polypeptide binding]; other site 1193292015472 GTP/Mg2+ binding site [chemical binding]; other site 1193292015473 Switch I region; other site 1193292015474 G2 box; other site 1193292015475 G3 box; other site 1193292015476 Switch II region; other site 1193292015477 G4 box; other site 1193292015478 G5 box; other site 1193292015479 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 1193292015480 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 1193292015481 Antibiotic Binding Site [chemical binding]; other site 1193292015482 pantothenate kinase; Provisional; Region: PRK05439 1193292015483 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 1193292015484 ATP-binding site [chemical binding]; other site 1193292015485 CoA-binding site [chemical binding]; other site 1193292015486 Mg2+-binding site [ion binding]; other site 1193292015487 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1193292015488 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1193292015489 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1193292015490 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1193292015491 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1193292015492 FAD binding domain; Region: FAD_binding_4; pfam01565 1193292015493 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1193292015494 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 1193292015495 potassium transporter; Provisional; Region: PRK10750 1193292015496 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1193292015497 hypothetical protein; Provisional; Region: PRK11568 1193292015498 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1193292015499 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1193292015500 proline dipeptidase; Provisional; Region: PRK13607 1193292015501 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1193292015502 active site 1193292015503 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1193292015504 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 1193292015505 substrate binding site [chemical binding]; other site 1193292015506 oxyanion hole (OAH) forming residues; other site 1193292015507 trimer interface [polypeptide binding]; other site 1193292015508 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1193292015509 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1193292015510 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1193292015511 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1193292015512 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1193292015513 dimer interface [polypeptide binding]; other site 1193292015514 active site 1193292015515 FMN reductase; Validated; Region: fre; PRK08051 1193292015516 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1193292015517 FAD binding pocket [chemical binding]; other site 1193292015518 FAD binding motif [chemical binding]; other site 1193292015519 phosphate binding motif [ion binding]; other site 1193292015520 beta-alpha-beta structure motif; other site 1193292015521 NAD binding pocket [chemical binding]; other site 1193292015522 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 1193292015523 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 1193292015524 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1193292015525 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 1193292015526 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1193292015527 active site 1193292015528 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 1193292015529 sec-independent translocase; Provisional; Region: PRK01770 1193292015530 sec-independent translocase; Provisional; Region: tatB; PRK00404 1193292015531 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 1193292015532 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1193292015533 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1193292015534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1193292015535 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1193292015536 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1193292015537 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 1193292015538 S-adenosylmethionine binding site [chemical binding]; other site 1193292015539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1193292015540 DNA recombination protein RmuC; Provisional; Region: PRK10361 1193292015541 RmuC family; Region: RmuC; pfam02646 1193292015542 uridine phosphorylase; Provisional; Region: PRK11178 1193292015543 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 1193292015544 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1193292015545 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1193292015546 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1193292015547 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1193292015548 THF binding site; other site 1193292015549 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1193292015550 substrate binding site [chemical binding]; other site 1193292015551 THF binding site; other site 1193292015552 zinc-binding site [ion binding]; other site 1193292015553 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1193292015554 EamA-like transporter family; Region: EamA; pfam00892 1193292015555 putative hydrolase; Provisional; Region: PRK10976 1193292015556 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 1193292015557 active site 1193292015558 motif I; other site 1193292015559 motif II; other site 1193292015560 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 1193292015561 lysophospholipase L2; Provisional; Region: PRK10749 1193292015562 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1193292015563 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 1193292015564 putative transposase; Provisional; Region: PRK09857 1193292015565 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1193292015566 threonine efflux system; Provisional; Region: PRK10229 1193292015567 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1193292015568 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 1193292015569 ATP binding site [chemical binding]; other site 1193292015570 putative Mg++ binding site [ion binding]; other site 1193292015571 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 1193292015572 nucleotide binding region [chemical binding]; other site 1193292015573 ATP-binding site [chemical binding]; other site 1193292015574 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1193292015575 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1193292015576 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 1193292015577 dimerization interface [polypeptide binding]; other site 1193292015578 substrate binding site [chemical binding]; other site 1193292015579 active site 1193292015580 calcium binding site [ion binding]; other site 1193292015581 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 1193292015582 CoenzymeA binding site [chemical binding]; other site 1193292015583 subunit interaction site [polypeptide binding]; other site 1193292015584 PHB binding site; other site 1193292015585 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 1193292015586 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1193292015587 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1193292015588 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1193292015589 Cl binding site [ion binding]; other site 1193292015590 oligomer interface [polypeptide binding]; other site 1193292015591 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1193292015592 Part of AAA domain; Region: AAA_19; pfam13245 1193292015593 Family description; Region: UvrD_C_2; pfam13538 1193292015594 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1193292015595 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 1193292015596 motif II; other site 1193292015597 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1193292015598 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 1193292015599 active site 1193292015600 Int/Topo IB signature motif; other site 1193292015601 hypothetical protein; Provisional; Region: PRK10963 1193292015602 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1193292015603 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1193292015604 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1193292015605 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1193292015606 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1193292015607 putative iron binding site [ion binding]; other site 1193292015608 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 1193292015609 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1193292015610 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1193292015611 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1193292015612 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1193292015613 domain interfaces; other site 1193292015614 active site 1193292015615 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1193292015616 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 1193292015617 active site 1193292015618 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1193292015619 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1193292015620 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 1193292015621 HemY protein N-terminus; Region: HemY_N; pfam07219 1193292015622 putative transport protein YifK; Provisional; Region: PRK10746 1193292015623 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1193292015624 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1193292015625 putative common antigen polymerase; Provisional; Region: PRK02975 1193292015626 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1193292015627 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1193292015628 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 1193292015629 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1193292015630 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1193292015631 inhibitor-cofactor binding pocket; inhibition site 1193292015632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292015633 catalytic residue [active] 1193292015634 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 1193292015635 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1193292015636 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1193292015637 substrate binding site; other site 1193292015638 tetramer interface; other site 1193292015639 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 1193292015640 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1193292015641 NAD binding site [chemical binding]; other site 1193292015642 substrate binding site [chemical binding]; other site 1193292015643 homodimer interface [polypeptide binding]; other site 1193292015644 active site 1193292015645 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1193292015646 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1193292015647 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1193292015648 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1193292015649 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1193292015650 homodimer interface [polypeptide binding]; other site 1193292015651 active site 1193292015652 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 1193292015653 Chain length determinant protein; Region: Wzz; pfam02706 1193292015654 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 1193292015655 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 1193292015656 Mg++ binding site [ion binding]; other site 1193292015657 putative catalytic motif [active] 1193292015658 substrate binding site [chemical binding]; other site 1193292015659 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1193292015660 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1193292015661 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1193292015662 RNA binding site [nucleotide binding]; other site 1193292015663 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 1193292015664 multimer interface [polypeptide binding]; other site 1193292015665 Walker A motif; other site 1193292015666 ATP binding site [chemical binding]; other site 1193292015667 Walker B motif; other site 1193292015668 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 1193292015669 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1193292015670 catalytic residues [active] 1193292015671 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1193292015672 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 1193292015673 ATP binding site [chemical binding]; other site 1193292015674 Mg++ binding site [ion binding]; other site 1193292015675 motif III; other site 1193292015676 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 1193292015677 nucleotide binding region [chemical binding]; other site 1193292015678 ATP-binding site [chemical binding]; other site 1193292015679 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1193292015680 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1193292015681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1193292015682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292015683 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1193292015684 substrate binding pocket [chemical binding]; other site 1193292015685 dimerization interface [polypeptide binding]; other site 1193292015686 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 1193292015687 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1193292015688 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 1193292015689 Part of AAA domain; Region: AAA_19; pfam13245 1193292015690 Family description; Region: UvrD_C_2; pfam13538 1193292015691 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1193292015692 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1193292015693 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 1193292015694 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1193292015695 ketol-acid reductoisomerase; Validated; Region: PRK05225 1193292015696 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1193292015697 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1193292015698 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1193292015699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292015700 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1193292015701 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1193292015702 putative dimerization interface [polypeptide binding]; other site 1193292015703 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1193292015704 threonine dehydratase; Reviewed; Region: PRK09224 1193292015705 tetramer interface [polypeptide binding]; other site 1193292015706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292015707 catalytic residue [active] 1193292015708 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1193292015709 putative Ile/Val binding site [chemical binding]; other site 1193292015710 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1193292015711 putative Ile/Val binding site [chemical binding]; other site 1193292015712 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1193292015713 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1193292015714 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 1193292015715 homodimer interface [polypeptide binding]; other site 1193292015716 substrate-cofactor binding pocket; other site 1193292015717 catalytic residue [active] 1193292015718 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1193292015719 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1193292015720 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1193292015721 dimer interface [polypeptide binding]; other site 1193292015722 PYR/PP interface [polypeptide binding]; other site 1193292015723 TPP binding site [chemical binding]; other site 1193292015724 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1193292015725 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1193292015726 TPP-binding site [chemical binding]; other site 1193292015727 dimer interface [polypeptide binding]; other site 1193292015728 putative ATP-dependent protease; Provisional; Region: PRK09862 1193292015729 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1193292015730 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 1193292015731 Walker A motif; other site 1193292015732 ATP binding site [chemical binding]; other site 1193292015733 Walker B motif; other site 1193292015734 arginine finger; other site 1193292015735 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1193292015736 hypothetical protein; Provisional; Region: PRK11027 1193292015737 transcriptional regulator HdfR; Provisional; Region: PRK03601 1193292015738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292015739 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1193292015740 glutamate racemase; Provisional; Region: PRK00865 1193292015741 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1193292015742 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 1193292015743 S-adenosylmethionine binding site [chemical binding]; other site 1193292015744 hypothetical protein; Provisional; Region: PRK11056 1193292015745 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1193292015746 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1193292015747 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1193292015748 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1193292015749 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1193292015750 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1193292015751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292015752 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 1193292015753 dimerization interface [polypeptide binding]; other site 1193292015754 argininosuccinate lyase; Provisional; Region: PRK04833 1193292015755 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1193292015756 active sites [active] 1193292015757 tetramer interface [polypeptide binding]; other site 1193292015758 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 1193292015759 nucleotide binding site [chemical binding]; other site 1193292015760 N-acetyl-L-glutamate binding site [chemical binding]; other site 1193292015761 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1193292015762 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1193292015763 acetylornithine deacetylase; Provisional; Region: PRK05111 1193292015764 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1193292015765 metal binding site [ion binding]; metal-binding site 1193292015766 putative dimer interface [polypeptide binding]; other site 1193292015767 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1193292015768 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1193292015769 zinc/cadmium-binding protein; Provisional; Region: PRK10306 1193292015770 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1193292015771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292015772 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1193292015773 active site 1193292015774 intersubunit interactions; other site 1193292015775 catalytic residue [active] 1193292015776 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1193292015777 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1193292015778 dimer interface [polypeptide binding]; other site 1193292015779 active site 1193292015780 metal binding site [ion binding]; metal-binding site 1193292015781 EamA-like transporter family; Region: EamA; pfam00892 1193292015782 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1193292015783 EamA-like transporter family; Region: EamA; pfam00892 1193292015784 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 1193292015785 FAD binding site [chemical binding]; other site 1193292015786 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1193292015787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292015788 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1193292015789 dimerization interface [polypeptide binding]; other site 1193292015790 substrate binding pocket [chemical binding]; other site 1193292015791 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1193292015792 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1193292015793 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1193292015794 active site 1193292015795 metal binding site [ion binding]; metal-binding site 1193292015796 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1193292015797 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1193292015798 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 1193292015799 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1193292015800 putative catalytic residues [active] 1193292015801 putative nucleotide binding site [chemical binding]; other site 1193292015802 putative aspartate binding site [chemical binding]; other site 1193292015803 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 1193292015804 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1193292015805 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1193292015806 cystathionine gamma-synthase; Provisional; Region: PRK08045 1193292015807 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1193292015808 homodimer interface [polypeptide binding]; other site 1193292015809 substrate-cofactor binding pocket; other site 1193292015810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1193292015811 catalytic residue [active] 1193292015812 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 1193292015813 dimerization interface [polypeptide binding]; other site 1193292015814 DNA binding site [nucleotide binding] 1193292015815 corepressor binding sites; other site 1193292015816 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1193292015817 primosome assembly protein PriA; Validated; Region: PRK05580 1193292015818 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 1193292015819 ATP binding site [chemical binding]; other site 1193292015820 putative Mg++ binding site [ion binding]; other site 1193292015821 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1193292015822 ATP-binding site [chemical binding]; other site 1193292015823 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292015824 DNA binding site [nucleotide binding] 1193292015825 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 1193292015826 domain linker motif; other site 1193292015827 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1193292015828 dimerization interface [polypeptide binding]; other site 1193292015829 ligand binding site [chemical binding]; other site 1193292015830 essential cell division protein FtsN; Provisional; Region: PRK10927 1193292015831 cell division protein FtsN; Provisional; Region: PRK12757 1193292015832 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1193292015833 active site 1193292015834 HslU subunit interaction site [polypeptide binding]; other site 1193292015835 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1193292015836 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 1193292015837 Walker A motif; other site 1193292015838 ATP binding site [chemical binding]; other site 1193292015839 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1193292015840 Walker B motif; other site 1193292015841 arginine finger; other site 1193292015842 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1193292015843 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1193292015844 UbiA prenyltransferase family; Region: UbiA; pfam01040 1193292015845 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1193292015846 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1193292015847 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1193292015848 active site 1193292015849 ADP/pyrophosphate binding site [chemical binding]; other site 1193292015850 dimerization interface [polypeptide binding]; other site 1193292015851 allosteric effector site; other site 1193292015852 fructose-1,6-bisphosphate binding site; other site 1193292015853 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 1193292015854 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1193292015855 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1193292015856 dimer interface [polypeptide binding]; other site 1193292015857 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1193292015858 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 1193292015859 active site 1193292015860 phosphorylation site [posttranslational modification] 1193292015861 intermolecular recognition site; other site 1193292015862 dimerization interface [polypeptide binding]; other site 1193292015863 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 1193292015864 DNA binding site [nucleotide binding] 1193292015865 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 1193292015866 MOSC domain; Region: MOSC; pfam03473 1193292015867 3-alpha domain; Region: 3-alpha; pfam03475 1193292015868 superoxide dismutase; Provisional; Region: PRK10925 1193292015869 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1193292015870 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1193292015871 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 1193292015872 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 1193292015873 transcriptional activator RhaR; Provisional; Region: PRK13502 1193292015874 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1193292015875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292015876 transcriptional activator RhaS; Provisional; Region: PRK13503 1193292015877 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1193292015878 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292015879 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1193292015880 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1193292015881 N- and C-terminal domain interface [polypeptide binding]; other site 1193292015882 active site 1193292015883 putative catalytic site [active] 1193292015884 metal binding site [ion binding]; metal-binding site 1193292015885 ATP binding site [chemical binding]; other site 1193292015886 rhamnulokinase; Provisional; Region: rhaB; PRK10640 1193292015887 carbohydrate binding site [chemical binding]; other site 1193292015888 L-rhamnose isomerase; Provisional; Region: PRK01076 1193292015889 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1193292015890 intersubunit interface [polypeptide binding]; other site 1193292015891 active site 1193292015892 Zn2+ binding site [ion binding]; other site 1193292015893 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1193292015894 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 1193292015895 ligand binding site [chemical binding]; other site 1193292015896 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1193292015897 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292015898 Walker A/P-loop; other site 1193292015899 ATP binding site [chemical binding]; other site 1193292015900 Q-loop/lid; other site 1193292015901 ABC transporter signature motif; other site 1193292015902 Walker B; other site 1193292015903 D-loop; other site 1193292015904 H-loop/switch region; other site 1193292015905 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292015906 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292015907 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 1193292015908 TM-ABC transporter signature motif; other site 1193292015909 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292015910 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 1193292015911 TM-ABC transporter signature motif; other site 1193292015912 lactaldehyde reductase; Region: lactal_redase; TIGR02638 1193292015913 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1193292015914 dimer interface [polypeptide binding]; other site 1193292015915 active site 1193292015916 metal binding site [ion binding]; metal-binding site 1193292015917 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 1193292015918 galactoside permease; Reviewed; Region: lacY; PRK09528 1193292015919 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 1193292015920 putative substrate translocation pore; other site 1193292015921 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1193292015922 Melibiase; Region: Melibiase; pfam02065 1193292015923 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1193292015924 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292015925 DNA binding site [nucleotide binding] 1193292015926 domain linker motif; other site 1193292015927 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1193292015928 ligand binding site [chemical binding]; other site 1193292015929 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1193292015930 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 1193292015931 non-specific DNA binding site [nucleotide binding]; other site 1193292015932 salt bridge; other site 1193292015933 sequence-specific DNA binding site [nucleotide binding]; other site 1193292015934 Cupin domain; Region: Cupin_2; cl17218 1193292015935 AzlC protein; Region: AzlC; cl00570 1193292015936 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1193292015937 AAA domain; Region: AAA_18; pfam13238 1193292015938 AAA domain; Region: AAA_17; pfam13207 1193292015939 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 1193292015940 active site 1193292015941 phosphorylation site [posttranslational modification] 1193292015942 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1193292015943 intersubunit interface [polypeptide binding]; other site 1193292015944 active site 1193292015945 zinc binding site [ion binding]; other site 1193292015946 Na+ binding site [ion binding]; other site 1193292015947 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 1193292015948 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 1193292015949 active site 1193292015950 P-loop; other site 1193292015951 phosphorylation site [posttranslational modification] 1193292015952 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 1193292015953 dimerization interface [polypeptide binding]; other site 1193292015954 allosteric effector site; other site 1193292015955 active site 1193292015956 ADP/pyrophosphate binding site [chemical binding]; other site 1193292015957 fructose-1,6-bisphosphate binding site; other site 1193292015958 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1193292015959 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1193292015960 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1193292015961 [4Fe-4S] binding site [ion binding]; other site 1193292015962 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1193292015963 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1193292015964 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1193292015965 molybdopterin cofactor binding site; other site 1193292015966 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1193292015967 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1193292015968 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 1193292015969 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1193292015970 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1193292015971 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1193292015972 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1193292015973 oligomeric interface; other site 1193292015974 putative active site [active] 1193292015975 homodimer interface [polypeptide binding]; other site 1193292015976 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 1193292015977 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 1193292015978 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1193292015979 substrate binding pocket [chemical binding]; other site 1193292015980 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292015981 Coenzyme A binding pocket [chemical binding]; other site 1193292015982 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1193292015983 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 1193292015984 putative active site [active] 1193292015985 dimerization interface [polypeptide binding]; other site 1193292015986 putative tRNAtyr binding site [nucleotide binding]; other site 1193292015987 hypothetical protein; Reviewed; Region: PRK01637 1193292015988 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1193292015989 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 1193292015990 motif II; other site 1193292015991 GTP-binding protein; Provisional; Region: PRK10218 1193292015992 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1193292015993 G1 box; other site 1193292015994 putative GEF interaction site [polypeptide binding]; other site 1193292015995 GTP/Mg2+ binding site [chemical binding]; other site 1193292015996 Switch I region; other site 1193292015997 G2 box; other site 1193292015998 G3 box; other site 1193292015999 Switch II region; other site 1193292016000 G4 box; other site 1193292016001 G5 box; other site 1193292016002 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 1193292016003 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 1193292016004 glutamine synthetase; Provisional; Region: glnA; PRK09469 1193292016005 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1193292016006 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1193292016007 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1193292016008 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1193292016009 putative active site [active] 1193292016010 heme pocket [chemical binding]; other site 1193292016011 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 1193292016012 dimer interface [polypeptide binding]; other site 1193292016013 phosphorylation site [posttranslational modification] 1193292016014 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 1193292016015 ATP binding site [chemical binding]; other site 1193292016016 Mg2+ binding site [ion binding]; other site 1193292016017 G-X-G motif; other site 1193292016018 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1193292016019 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 1193292016020 active site 1193292016021 phosphorylation site [posttranslational modification] 1193292016022 intermolecular recognition site; other site 1193292016023 dimerization interface [polypeptide binding]; other site 1193292016024 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 1193292016025 Walker A motif; other site 1193292016026 ATP binding site [chemical binding]; other site 1193292016027 Walker B motif; other site 1193292016028 arginine finger; other site 1193292016029 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1193292016030 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1193292016031 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 1193292016032 FeS/SAM binding site; other site 1193292016033 HemN C-terminal domain; Region: HemN_C; pfam06969 1193292016034 Der GTPase activator; Provisional; Region: PRK05244 1193292016035 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1193292016036 G1 box; other site 1193292016037 GTP/Mg2+ binding site [chemical binding]; other site 1193292016038 Switch I region; other site 1193292016039 G2 box; other site 1193292016040 G3 box; other site 1193292016041 Switch II region; other site 1193292016042 G4 box; other site 1193292016043 G5 box; other site 1193292016044 DNA polymerase I; Provisional; Region: PRK05755 1193292016045 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1193292016046 active site 1193292016047 putative 5' ssDNA interaction site; other site 1193292016048 metal binding site 3; metal-binding site 1193292016049 metal binding site 1 [ion binding]; metal-binding site 1193292016050 metal binding site 2 [ion binding]; metal-binding site 1193292016051 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1193292016052 putative DNA binding site [nucleotide binding]; other site 1193292016053 putative metal binding site [ion binding]; other site 1193292016054 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1193292016055 active site 1193292016056 catalytic site [active] 1193292016057 substrate binding site [chemical binding]; other site 1193292016058 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1193292016059 active site 1193292016060 DNA binding site [nucleotide binding] 1193292016061 catalytic site [active] 1193292016062 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1193292016063 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1193292016064 putative acyl-acceptor binding pocket; other site 1193292016065 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1193292016066 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1193292016067 catalytic residues [active] 1193292016068 hinge region; other site 1193292016069 alpha helical domain; other site 1193292016070 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1193292016071 serine/threonine protein kinase; Provisional; Region: PRK11768 1193292016072 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 1193292016073 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1193292016074 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1193292016075 GTP binding site; other site 1193292016076 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1193292016077 Walker A motif; other site 1193292016078 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1193292016079 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1193292016080 DNA-binding site [nucleotide binding]; DNA binding site 1193292016081 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1193292016082 putative transporter; Provisional; Region: PRK10504 1193292016083 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 1193292016084 putative substrate translocation pore; other site 1193292016085 transcriptional repressor RbsR; Provisional; Region: PRK10423 1193292016086 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1193292016087 DNA binding site [nucleotide binding] 1193292016088 domain linker motif; other site 1193292016089 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1193292016090 dimerization interface [polypeptide binding]; other site 1193292016091 ligand binding site [chemical binding]; other site 1193292016092 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1193292016093 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1193292016094 substrate binding site [chemical binding]; other site 1193292016095 dimer interface [polypeptide binding]; other site 1193292016096 ATP binding site [chemical binding]; other site 1193292016097 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1193292016098 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1193292016099 ligand binding site [chemical binding]; other site 1193292016100 dimerization interface [polypeptide binding]; other site 1193292016101 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1193292016102 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 1193292016103 TM-ABC transporter signature motif; other site 1193292016104 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1193292016105 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1193292016106 Walker A/P-loop; other site 1193292016107 ATP binding site [chemical binding]; other site 1193292016108 Q-loop/lid; other site 1193292016109 ABC transporter signature motif; other site 1193292016110 Walker B; other site 1193292016111 D-loop; other site 1193292016112 H-loop/switch region; other site 1193292016113 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1193292016114 D-ribose pyranase; Provisional; Region: PRK11797 1193292016115 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 1193292016116 potassium uptake protein; Region: kup; TIGR00794 1193292016117 regulatory ATPase RavA; Provisional; Region: PRK13531 1193292016118 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 1193292016119 Walker A motif; other site 1193292016120 ATP binding site [chemical binding]; other site 1193292016121 Walker B motif; other site 1193292016122 arginine finger; other site 1193292016123 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 1193292016124 hypothetical protein; Provisional; Region: yieM; PRK10997 1193292016125 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 1193292016126 metal ion-dependent adhesion site (MIDAS); other site 1193292016127 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1193292016128 dimer interface [polypeptide binding]; other site 1193292016129 active site 1193292016130 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1193292016131 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 1193292016132 putative DNA binding site [nucleotide binding]; other site 1193292016133 putative Zn2+ binding site [ion binding]; other site 1193292016134 AsnC family; Region: AsnC_trans_reg; pfam01037 1193292016135 FMN-binding protein MioC; Provisional; Region: PRK09004 1193292016136 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1193292016137 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1193292016138 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1193292016139 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1193292016140 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 1193292016141 S-adenosylmethionine binding site [chemical binding]; other site 1193292016142 ATP synthase I chain; Region: ATP_synt_I; cl09170 1193292016143 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1193292016144 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1193292016145 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1193292016146 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1193292016147 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1193292016148 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1193292016149 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1193292016150 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1193292016151 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1193292016152 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 1193292016153 beta subunit interaction interface [polypeptide binding]; other site 1193292016154 Walker A motif; other site 1193292016155 ATP binding site [chemical binding]; other site 1193292016156 Walker B motif; other site 1193292016157 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1193292016158 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1193292016159 core domain interface [polypeptide binding]; other site 1193292016160 delta subunit interface [polypeptide binding]; other site 1193292016161 epsilon subunit interface [polypeptide binding]; other site 1193292016162 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1193292016163 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1193292016164 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 1193292016165 alpha subunit interaction interface [polypeptide binding]; other site 1193292016166 Walker A motif; other site 1193292016167 ATP binding site [chemical binding]; other site 1193292016168 Walker B motif; other site 1193292016169 inhibitor binding site; inhibition site 1193292016170 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1193292016171 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1193292016172 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1193292016173 gamma subunit interface [polypeptide binding]; other site 1193292016174 epsilon subunit interface [polypeptide binding]; other site 1193292016175 LBP interface [polypeptide binding]; other site 1193292016176 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1193292016177 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1193292016178 Substrate binding site; other site 1193292016179 Mg++ binding site; other site 1193292016180 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 1193292016181 active site 1193292016182 substrate binding site [chemical binding]; other site 1193292016183 CoA binding site [chemical binding]; other site 1193292016184 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1193292016185 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 1193292016186 glutaminase active site [active] 1193292016187 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 1193292016188 dimer interface [polypeptide binding]; other site 1193292016189 active site 1193292016190 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 1193292016191 dimer interface [polypeptide binding]; other site 1193292016192 active site 1193292016193 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 1193292016194 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1193292016195 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 1193292016196 dimer interface [polypeptide binding]; other site 1193292016197 conserved gate region; other site 1193292016198 putative PBP binding loops; other site 1193292016199 ABC-ATPase subunit interface; other site 1193292016200 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1193292016201 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 1193292016202 dimer interface [polypeptide binding]; other site 1193292016203 conserved gate region; other site 1193292016204 putative PBP binding loops; other site 1193292016205 ABC-ATPase subunit interface; other site 1193292016206 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1193292016207 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1193292016208 Walker A/P-loop; other site 1193292016209 ATP binding site [chemical binding]; other site 1193292016210 Q-loop/lid; other site 1193292016211 ABC transporter signature motif; other site 1193292016212 Walker B; other site 1193292016213 D-loop; other site 1193292016214 H-loop/switch region; other site 1193292016215 transcriptional regulator PhoU; Provisional; Region: PRK11115 1193292016216 PhoU domain; Region: PhoU; pfam01895 1193292016217 PhoU domain; Region: PhoU; pfam01895 1193292016218 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 1193292016219 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1193292016220 trimer interface; other site 1193292016221 sugar binding site [chemical binding]; other site 1193292016222 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 1193292016223 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1193292016224 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1193292016225 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1193292016226 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 1193292016227 active site 1193292016228 trimer interface [polypeptide binding]; other site 1193292016229 allosteric site; other site 1193292016230 active site lid [active] 1193292016231 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1193292016232 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 1193292016233 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 1193292016234 motif II; other site 1193292016235 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1193292016236 Predicted flavoprotein [General function prediction only]; Region: COG0431 1193292016237 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1193292016238 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1193292016239 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 1193292016240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1193292016241 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1193292016242 substrate binding pocket [chemical binding]; other site 1193292016243 dimerization interface [polypeptide binding]; other site 1193292016244 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 1193292016245 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 1193292016246 putative substrate translocation pore; other site 1193292016247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1193292016248 Coenzyme A binding pocket [chemical binding]; other site 1193292016249 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1193292016250 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1193292016251 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1193292016252 G1 box; other site 1193292016253 GTP/Mg2+ binding site [chemical binding]; other site 1193292016254 Switch I region; other site 1193292016255 G2 box; other site 1193292016256 Switch II region; other site 1193292016257 G3 box; other site 1193292016258 G4 box; other site 1193292016259 G5 box; other site 1193292016260 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1193292016261 membrane protein insertase; Provisional; Region: PRK01318 1193292016262 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1193292016263 Ribonuclease P; Region: Ribonuclease_P; cl00457 1193292016264 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399