-- dump date 20140620_000753 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1234380000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1234380000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1234380000003 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 1234380000004 Walker A motif; other site 1234380000005 ATP binding site [chemical binding]; other site 1234380000006 Walker B motif; other site 1234380000007 arginine finger; other site 1234380000008 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 1234380000009 DnaA box-binding interface [nucleotide binding]; other site 1234380000010 DNA polymerase III subunit beta; Validated; Region: PRK07761 1234380000011 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 1234380000012 putative DNA binding surface [nucleotide binding]; other site 1234380000013 dimer interface [polypeptide binding]; other site 1234380000014 beta-clamp/clamp loader binding surface; other site 1234380000015 beta-clamp/translesion DNA polymerase binding surface; other site 1234380000016 recombination protein F; Reviewed; Region: recF; PRK00064 1234380000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000018 Walker A/P-loop; other site 1234380000019 ATP binding site [chemical binding]; other site 1234380000020 Q-loop/lid; other site 1234380000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000022 ABC transporter signature motif; other site 1234380000023 Walker B; other site 1234380000024 D-loop; other site 1234380000025 H-loop/switch region; other site 1234380000026 Protein of unknown function (DUF721); Region: DUF721; cl02324 1234380000027 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000028 ABC transporter signature motif; other site 1234380000029 Walker B; other site 1234380000030 D-loop; other site 1234380000031 H-loop/switch region; other site 1234380000032 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 1234380000033 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1234380000034 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1234380000035 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1234380000036 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1234380000037 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 1234380000038 Mg2+ binding site [ion binding]; other site 1234380000039 G-X-G motif; other site 1234380000040 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 1234380000041 anchoring element; other site 1234380000042 dimer interface [polypeptide binding]; other site 1234380000043 ATP binding site [chemical binding]; other site 1234380000044 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 1234380000045 active site 1234380000046 putative metal-binding site [ion binding]; other site 1234380000047 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1234380000048 DNA gyrase subunit A; Validated; Region: PRK05560 1234380000049 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 1234380000050 CAP-like domain; other site 1234380000051 active site 1234380000052 primary dimer interface [polypeptide binding]; other site 1234380000053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1234380000054 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1234380000055 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1234380000056 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1234380000057 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1234380000058 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 1234380000059 A subgroup of L-lactate dehydrogenases; Region: LDH_3; cd05290 1234380000060 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1234380000061 NAD binding site [chemical binding]; other site 1234380000062 dimer interface [polypeptide binding]; other site 1234380000063 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1234380000064 substrate binding site [chemical binding]; other site 1234380000065 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380000066 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380000067 DNA binding site [nucleotide binding] 1234380000068 domain linker motif; other site 1234380000069 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia; Region: PBP1_LacI_like_13; cd06299 1234380000070 dimerization interface [polypeptide binding]; other site 1234380000071 putative ligand binding site [chemical binding]; other site 1234380000072 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1234380000073 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1234380000074 Walker A/P-loop; other site 1234380000075 ATP binding site [chemical binding]; other site 1234380000076 Q-loop/lid; other site 1234380000077 ABC transporter signature motif; other site 1234380000078 Walker B; other site 1234380000079 D-loop; other site 1234380000080 H-loop/switch region; other site 1234380000081 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1234380000082 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1234380000083 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 1234380000084 TM-ABC transporter signature motif; other site 1234380000085 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1234380000086 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1234380000087 ligand binding site [chemical binding]; other site 1234380000088 dimerization interface [polypeptide binding]; other site 1234380000089 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1234380000090 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 1234380000091 substrate binding site [chemical binding]; other site 1234380000092 dimer interface [polypeptide binding]; other site 1234380000093 ATP binding site [chemical binding]; other site 1234380000094 D-ribose pyranase; Provisional; Region: PRK11797 1234380000095 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 1234380000096 active site 1234380000097 phosphorylation site [posttranslational modification] 1234380000098 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1234380000099 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 1234380000100 active site 1234380000101 P-loop; other site 1234380000102 phosphorylation site [posttranslational modification] 1234380000103 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1234380000104 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1234380000105 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1234380000106 HTH domain; Region: HTH_11; cl17392 1234380000107 PRD domain; Region: PRD; pfam00874 1234380000108 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1234380000109 active site 1234380000110 phosphorylation site [posttranslational modification] 1234380000111 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1234380000112 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 1234380000113 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1234380000114 active site 1234380000115 motif I; other site 1234380000116 motif II; other site 1234380000117 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1234380000118 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1234380000119 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1234380000120 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1234380000121 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 1234380000122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380000123 homodimer interface [polypeptide binding]; other site 1234380000124 catalytic residue [active] 1234380000125 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1234380000126 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1234380000127 active site 1234380000128 nucleophile elbow; other site 1234380000129 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1234380000130 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1234380000131 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1234380000132 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1234380000133 Walker A motif; other site 1234380000134 ATP binding site [chemical binding]; other site 1234380000135 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1234380000136 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1234380000137 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1234380000138 H+ Antiporter protein; Region: 2A0121; TIGR00900 1234380000139 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1234380000140 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1234380000141 Potassium binding sites [ion binding]; other site 1234380000142 Cesium cation binding sites [ion binding]; other site 1234380000143 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1234380000144 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1234380000145 FtsX-like permease family; Region: FtsX; pfam02687 1234380000146 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1234380000147 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380000148 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380000149 Walker A/P-loop; other site 1234380000150 ATP binding site [chemical binding]; other site 1234380000151 Q-loop/lid; other site 1234380000152 ABC transporter signature motif; other site 1234380000153 Walker B; other site 1234380000154 D-loop; other site 1234380000155 H-loop/switch region; other site 1234380000156 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1234380000157 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 1234380000158 active site 1234380000159 phosphorylation site [posttranslational modification] 1234380000160 intermolecular recognition site; other site 1234380000161 dimerization interface [polypeptide binding]; other site 1234380000162 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 1234380000163 DNA binding residues [nucleotide binding] 1234380000164 dimerization interface [polypeptide binding]; other site 1234380000165 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380000166 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 1234380000167 dimer interface [polypeptide binding]; other site 1234380000168 conserved gate region; other site 1234380000169 putative PBP binding loops; other site 1234380000170 ABC-ATPase subunit interface; other site 1234380000171 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 1234380000172 dimer interface [polypeptide binding]; other site 1234380000173 conserved gate region; other site 1234380000174 putative PBP binding loops; other site 1234380000175 ABC-ATPase subunit interface; other site 1234380000176 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1234380000177 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1234380000178 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1234380000179 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1234380000180 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1234380000181 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1234380000182 NAD binding site [chemical binding]; other site 1234380000183 sugar binding site [chemical binding]; other site 1234380000184 divalent metal binding site [ion binding]; other site 1234380000185 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1234380000186 dimer interface [polypeptide binding]; other site 1234380000187 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 1234380000188 active site 1234380000189 catalytic site [active] 1234380000190 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1234380000191 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 1234380000192 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1234380000193 Sulfatase; Region: Sulfatase; cl17466 1234380000194 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1234380000195 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 1234380000196 motif II; other site 1234380000197 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 1234380000198 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1234380000199 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1234380000200 active site 1234380000201 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1234380000202 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 1234380000203 substrate binding site [chemical binding]; other site 1234380000204 ATP binding site [chemical binding]; other site 1234380000205 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1234380000206 Histidine kinase; Region: HisKA_3; pfam07730 1234380000207 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 1234380000208 ATP binding site [chemical binding]; other site 1234380000209 Mg2+ binding site [ion binding]; other site 1234380000210 G-X-G motif; other site 1234380000211 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1234380000212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1234380000213 NAD(P) binding site [chemical binding]; other site 1234380000214 active site 1234380000215 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1234380000216 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380000217 MMPL family; Region: MMPL; pfam03176 1234380000218 MMPL family; Region: MMPL; pfam03176 1234380000219 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1234380000220 Predicted membrane protein [Function unknown]; Region: COG1511 1234380000221 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380000222 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380000223 Walker A/P-loop; other site 1234380000224 ATP binding site [chemical binding]; other site 1234380000225 Q-loop/lid; other site 1234380000226 ABC transporter signature motif; other site 1234380000227 Walker B; other site 1234380000228 D-loop; other site 1234380000229 H-loop/switch region; other site 1234380000230 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 1234380000231 S-adenosylmethionine binding site [chemical binding]; other site 1234380000232 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 1234380000233 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1234380000234 putative ligand binding residues [chemical binding]; other site 1234380000235 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1234380000236 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 1234380000237 ABC-ATPase subunit interface; other site 1234380000238 dimer interface [polypeptide binding]; other site 1234380000239 putative PBP binding regions; other site 1234380000240 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1234380000241 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1234380000242 ABC transporter signature motif; other site 1234380000243 Walker B; other site 1234380000244 D-loop; other site 1234380000245 H-loop/switch region; other site 1234380000246 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1234380000247 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1234380000248 tetramerization interface [polypeptide binding]; other site 1234380000249 NAD(P) binding site [chemical binding]; other site 1234380000250 catalytic residues [active] 1234380000251 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1234380000252 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 1234380000253 putative ion selectivity filter; other site 1234380000254 putative pore gating glutamate residue; other site 1234380000255 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 1234380000256 homodimer interface [polypeptide binding]; other site 1234380000257 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1234380000258 active site pocket [active] 1234380000259 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1234380000260 DNA binding residues [nucleotide binding] 1234380000261 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 1234380000262 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 1234380000263 MarR family; Region: MarR_2; pfam12802 1234380000264 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1234380000265 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1234380000266 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family; Region: bind_CPR_0540; TIGR03850 1234380000267 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1234380000268 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 1234380000269 dimer interface [polypeptide binding]; other site 1234380000270 conserved gate region; other site 1234380000271 putative PBP binding loops; other site 1234380000272 ABC-ATPase subunit interface; other site 1234380000273 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380000274 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 1234380000275 dimer interface [polypeptide binding]; other site 1234380000276 conserved gate region; other site 1234380000277 putative PBP binding loops; other site 1234380000278 ABC-ATPase subunit interface; other site 1234380000279 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380000280 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380000281 DNA binding site [nucleotide binding] 1234380000282 domain linker motif; other site 1234380000283 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 1234380000284 ligand binding site [chemical binding]; other site 1234380000285 dimerization interface (open form) [polypeptide binding]; other site 1234380000286 dimerization interface (closed form) [polypeptide binding]; other site 1234380000287 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1234380000288 6-phosphofructokinase; Provisional; Region: PRK03202 1234380000289 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1234380000290 active site 1234380000291 ADP/pyrophosphate binding site [chemical binding]; other site 1234380000292 dimerization interface [polypeptide binding]; other site 1234380000293 allosteric effector site; other site 1234380000294 fructose-1,6-bisphosphate binding site; other site 1234380000295 Predicted transcriptional regulator [Transcription]; Region: COG2345 1234380000296 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 1234380000297 putative DNA binding site [nucleotide binding]; other site 1234380000298 putative Zn2+ binding site [ion binding]; other site 1234380000299 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1234380000300 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1234380000301 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1234380000302 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1234380000303 Aspartase; Region: Aspartase; cd01357 1234380000304 active sites [active] 1234380000305 tetramer interface [polypeptide binding]; other site 1234380000306 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1234380000307 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1234380000308 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1234380000309 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1234380000310 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1234380000311 heme binding pocket [chemical binding]; other site 1234380000312 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1234380000313 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380000314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000315 Walker A/P-loop; other site 1234380000316 ATP binding site [chemical binding]; other site 1234380000317 Q-loop/lid; other site 1234380000318 ABC transporter signature motif; other site 1234380000319 Walker B; other site 1234380000320 D-loop; other site 1234380000321 H-loop/switch region; other site 1234380000322 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1234380000323 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380000324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000325 Q-loop/lid; other site 1234380000326 ABC transporter signature motif; other site 1234380000327 Walker B; other site 1234380000328 D-loop; other site 1234380000329 H-loop/switch region; other site 1234380000330 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 1234380000331 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 1234380000332 Walker A motif; other site 1234380000333 ATP binding site [chemical binding]; other site 1234380000334 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 1234380000335 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 1234380000336 Walker A motif; other site 1234380000337 ATP binding site [chemical binding]; other site 1234380000338 Walker B motif; other site 1234380000339 arginine finger; other site 1234380000340 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 1234380000341 metal ion-dependent adhesion site (MIDAS); other site 1234380000342 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1234380000343 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 1234380000344 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1234380000345 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 1234380000346 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1234380000347 FeS/SAM binding site; other site 1234380000348 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1234380000349 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1234380000350 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1234380000351 Walker A/P-loop; other site 1234380000352 ATP binding site [chemical binding]; other site 1234380000353 Q-loop/lid; other site 1234380000354 ABC transporter signature motif; other site 1234380000355 Walker B; other site 1234380000356 D-loop; other site 1234380000357 H-loop/switch region; other site 1234380000358 FecCD transport family; Region: FecCD; pfam01032 1234380000359 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 1234380000360 ABC-ATPase subunit interface; other site 1234380000361 dimer interface [polypeptide binding]; other site 1234380000362 putative PBP binding regions; other site 1234380000363 Periplasmic binding protein TroA_d. 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_d; cd01141 1234380000364 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1234380000365 putative ligand binding site [chemical binding]; other site 1234380000366 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1234380000367 Periplasmic binding protein TroA_d. 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_d; cd01141 1234380000368 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1234380000369 putative ligand binding site [chemical binding]; other site 1234380000370 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1234380000371 multifunctional hydroxymethylpyrimidine phosphokinase/4-amino-5-aminomethyl-2-methylpyrimidine hydrolase; Provisional; Region: PRK14713 1234380000372 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 1234380000373 dimer interface [polypeptide binding]; other site 1234380000374 substrate binding site [chemical binding]; other site 1234380000375 ATP binding site [chemical binding]; other site 1234380000376 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1234380000377 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 1234380000378 thiamine phosphate binding site [chemical binding]; other site 1234380000379 active site 1234380000380 pyrophosphate binding site [ion binding]; other site 1234380000381 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380000382 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380000383 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380000384 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1234380000385 putative active site [active] 1234380000386 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1234380000387 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1234380000388 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1234380000389 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1234380000390 K+-transporting ATPase, c chain; Region: KdpC; cl00944 1234380000391 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1234380000392 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 1234380000393 Ligand Binding Site [chemical binding]; other site 1234380000394 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 1234380000395 dimer interface [polypeptide binding]; other site 1234380000396 phosphorylation site [posttranslational modification] 1234380000397 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 1234380000398 ATP binding site [chemical binding]; other site 1234380000399 Mg2+ binding site [ion binding]; other site 1234380000400 G-X-G motif; other site 1234380000401 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1234380000402 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 1234380000403 active site 1234380000404 phosphorylation site [posttranslational modification] 1234380000405 intermolecular recognition site; other site 1234380000406 dimerization interface [polypeptide binding]; other site 1234380000407 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 1234380000408 DNA binding site [nucleotide binding] 1234380000409 EXLDI protein; Region: EXLDI; TIGR04342 1234380000410 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1234380000411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000412 Walker A/P-loop; other site 1234380000413 ATP binding site [chemical binding]; other site 1234380000414 Q-loop/lid; other site 1234380000415 ABC transporter signature motif; other site 1234380000416 Walker B; other site 1234380000417 D-loop; other site 1234380000418 H-loop/switch region; other site 1234380000419 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1234380000420 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1234380000421 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1234380000422 catalytic residues [active] 1234380000423 catalytic nucleophile [active] 1234380000424 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1234380000425 Recombinase; Region: Recombinase; pfam07508 1234380000426 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1234380000427 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1234380000428 catalytic residues [active] 1234380000429 Recombinase; Region: Recombinase; pfam07508 1234380000430 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1234380000431 Homeodomain-like domain; Region: HTH_23; pfam13384 1234380000432 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 1234380000433 amidase catalytic site [active] 1234380000434 Zn binding residues [ion binding]; other site 1234380000435 substrate binding site [chemical binding]; other site 1234380000436 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1234380000437 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1234380000438 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1234380000439 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1234380000440 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1234380000441 Transglycosylase; Region: Transgly; pfam00912 1234380000442 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1234380000443 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1234380000444 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; pfam04188 1234380000445 This family is most closely related to the GT1 family of glycosyltransferases. AmsK is involved in the biosynthesis of amylovoran, which functions as a virulence factor. It functions as a glycosyl transferase which transfers galactose from UDP-galactose...; Region: GT1_AmsK_like; cd04946 1234380000446 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1234380000447 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1234380000448 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 1234380000449 O-Antigen ligase; Region: Wzy_C; pfam04932 1234380000450 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1234380000451 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 1234380000452 putative trimer interface [polypeptide binding]; other site 1234380000453 putative CoA binding site [chemical binding]; other site 1234380000454 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 1234380000455 putative trimer interface [polypeptide binding]; other site 1234380000456 putative active site [active] 1234380000457 putative substrate binding site [chemical binding]; other site 1234380000458 putative CoA binding site [chemical binding]; other site 1234380000459 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1234380000460 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 1234380000461 inhibitor-cofactor binding pocket; inhibition site 1234380000462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380000463 catalytic residue [active] 1234380000464 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1234380000465 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1234380000466 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1234380000467 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1234380000468 O-Antigen ligase; Region: Wzy_C; pfam04932 1234380000469 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1234380000470 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 1234380000471 POT family; Region: PTR2; cl17359 1234380000472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1234380000473 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380000474 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1234380000475 classical (c) SDRs; Region: SDR_c; cd05233 1234380000476 NAD(P) binding site [chemical binding]; other site 1234380000477 active site 1234380000478 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 1234380000479 dimerization domain swap beta strand [polypeptide binding]; other site 1234380000480 regulatory protein interface [polypeptide binding]; other site 1234380000481 active site 1234380000482 regulatory phosphorylation site [posttranslational modification]; other site 1234380000483 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 1234380000484 active site 1234380000485 phosphorylation site [posttranslational modification] 1234380000486 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 1234380000487 active site 1234380000488 P-loop; other site 1234380000489 phosphorylation site [posttranslational modification] 1234380000490 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1234380000491 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1234380000492 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 1234380000493 putative substrate binding site [chemical binding]; other site 1234380000494 putative ATP binding site [chemical binding]; other site 1234380000495 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1234380000496 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1234380000497 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1234380000498 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1234380000499 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1234380000500 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1234380000501 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1234380000502 O-Antigen ligase; Region: Wzy_C; pfam04932 1234380000503 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1234380000504 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1234380000505 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 1234380000506 active site 1234380000507 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1234380000508 homodimer interface [polypeptide binding]; other site 1234380000509 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 1234380000510 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1234380000511 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1234380000512 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1234380000513 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380000514 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 1234380000515 nudix motif; other site 1234380000516 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1234380000517 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 1234380000518 ATP binding site [chemical binding]; other site 1234380000519 putative Mg++ binding site [ion binding]; other site 1234380000520 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 1234380000521 nucleotide binding region [chemical binding]; other site 1234380000522 ATP-binding site [chemical binding]; other site 1234380000523 Helicase associated domain (HA2); Region: HA2; pfam04408 1234380000524 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1234380000525 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 1234380000526 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1234380000527 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1234380000528 Walker A/P-loop; other site 1234380000529 ATP binding site [chemical binding]; other site 1234380000530 Q-loop/lid; other site 1234380000531 ABC transporter signature motif; other site 1234380000532 Walker B; other site 1234380000533 D-loop; other site 1234380000534 H-loop/switch region; other site 1234380000535 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000536 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1234380000537 Walker A/P-loop; other site 1234380000538 ATP binding site [chemical binding]; other site 1234380000539 Q-loop/lid; other site 1234380000540 ABC transporter signature motif; other site 1234380000541 Walker B; other site 1234380000542 D-loop; other site 1234380000543 H-loop/switch region; other site 1234380000544 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1234380000545 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1234380000546 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1234380000547 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 1234380000548 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 1234380000549 putative active site [active] 1234380000550 putative FMN binding site [chemical binding]; other site 1234380000551 putative substrate binding site [chemical binding]; other site 1234380000552 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1234380000553 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 1234380000554 dimer interface [polypeptide binding]; other site 1234380000555 PYR/PP interface [polypeptide binding]; other site 1234380000556 TPP binding site [chemical binding]; other site 1234380000557 substrate binding site [chemical binding]; other site 1234380000558 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1234380000559 Domain of unknown function; Region: EKR; smart00890 1234380000560 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1234380000561 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 1234380000562 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 1234380000563 TPP-binding site [chemical binding]; other site 1234380000564 dimer interface [polypeptide binding]; other site 1234380000565 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1234380000566 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1234380000567 4Fe-4S binding domain; Region: Fer4; pfam00037 1234380000568 Domain of unknown function DUF77; Region: DUF77; pfam01910 1234380000569 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1234380000570 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1234380000571 DNA-binding site [nucleotide binding]; DNA binding site 1234380000572 L-lactate permease; Region: Lactate_perm; cl00701 1234380000573 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1234380000574 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1234380000575 Cysteine-rich domain; Region: CCG; pfam02754 1234380000576 Cysteine-rich domain; Region: CCG; pfam02754 1234380000577 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1234380000578 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1234380000579 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 1234380000580 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1234380000581 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000582 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1234380000583 Walker A/P-loop; other site 1234380000584 ATP binding site [chemical binding]; other site 1234380000585 Q-loop/lid; other site 1234380000586 ABC transporter signature motif; other site 1234380000587 Walker B; other site 1234380000588 D-loop; other site 1234380000589 H-loop/switch region; other site 1234380000590 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1234380000591 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1234380000592 Walker A/P-loop; other site 1234380000593 ATP binding site [chemical binding]; other site 1234380000594 Q-loop/lid; other site 1234380000595 ABC transporter signature motif; other site 1234380000596 Walker B; other site 1234380000597 D-loop; other site 1234380000598 H-loop/switch region; other site 1234380000599 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 1234380000600 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380000601 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1234380000602 Walker A/P-loop; other site 1234380000603 ATP binding site [chemical binding]; other site 1234380000604 Q-loop/lid; other site 1234380000605 ABC transporter signature motif; other site 1234380000606 Walker B; other site 1234380000607 D-loop; other site 1234380000608 H-loop/switch region; other site 1234380000609 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1234380000610 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1234380000611 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1234380000612 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1234380000613 Amino acid permease; Region: AA_permease_2; pfam13520 1234380000614 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1234380000615 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380000616 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1234380000617 Walker A/P-loop; other site 1234380000618 ATP binding site [chemical binding]; other site 1234380000619 Q-loop/lid; other site 1234380000620 ABC transporter signature motif; other site 1234380000621 Walker B; other site 1234380000622 D-loop; other site 1234380000623 H-loop/switch region; other site 1234380000624 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1234380000625 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380000626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000627 Walker A/P-loop; other site 1234380000628 ATP binding site [chemical binding]; other site 1234380000629 Q-loop/lid; other site 1234380000630 ABC transporter signature motif; other site 1234380000631 Walker B; other site 1234380000632 D-loop; other site 1234380000633 H-loop/switch region; other site 1234380000634 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1234380000635 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 1234380000636 non-specific DNA binding site [nucleotide binding]; other site 1234380000637 salt bridge; other site 1234380000638 sequence-specific DNA binding site [nucleotide binding]; other site 1234380000639 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1234380000640 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1234380000641 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 1234380000642 dimer interface [polypeptide binding]; other site 1234380000643 putative anticodon binding site; other site 1234380000644 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 1234380000645 motif 1; other site 1234380000646 dimer interface [polypeptide binding]; other site 1234380000647 active site 1234380000648 motif 2; other site 1234380000649 motif 3; other site 1234380000650 Uncharacterized protein family (UPF0233); Region: UPF0233; pfam06781 1234380000651 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1234380000652 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1234380000653 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1234380000654 active site 1234380000655 ATP binding site [chemical binding]; other site 1234380000656 substrate binding site [chemical binding]; other site 1234380000657 activation loop (A-loop); other site 1234380000658 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1234380000659 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1234380000660 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1234380000661 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1234380000662 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1234380000663 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1234380000664 active site 1234380000665 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1234380000666 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1234380000667 phosphopeptide binding site; other site 1234380000668 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 1234380000669 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1234380000670 phosphopeptide binding site; other site 1234380000671 Phosphotransferase enzyme family; Region: APH; pfam01636 1234380000672 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 1234380000673 active site 1234380000674 ATP binding site [chemical binding]; other site 1234380000675 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1234380000676 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000677 RHS Repeat; Region: RHS_repeat; cl11982 1234380000678 RHS Repeat; Region: RHS_repeat; cl11982 1234380000679 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1234380000680 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000681 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000682 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000683 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000684 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1234380000685 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1234380000686 RHS Repeat; Region: RHS_repeat; cl11982 1234380000687 RHS Repeat; Region: RHS_repeat; cl11982 1234380000688 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1234380000689 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000690 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000691 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000692 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000693 RHS Repeat; Region: RHS_repeat; cl11982 1234380000694 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1234380000695 RHS Repeat; Region: RHS_repeat; cl11982 1234380000696 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000697 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000698 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000699 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1234380000700 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000701 RHS Repeat; Region: RHS_repeat; pfam05593 1234380000702 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 1234380000703 RNA binding surface [nucleotide binding]; other site 1234380000704 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 1234380000705 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 1234380000706 Walker A motif; other site 1234380000707 ATP binding site [chemical binding]; other site 1234380000708 Walker B motif; other site 1234380000709 arginine finger; other site 1234380000710 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1234380000711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0718 1234380000712 recombination protein RecR; Reviewed; Region: recR; PRK00076 1234380000713 RecR protein; Region: RecR; pfam02132 1234380000714 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1234380000715 putative active site [active] 1234380000716 putative metal-binding site [ion binding]; other site 1234380000717 tetramer interface [polypeptide binding]; other site 1234380000718 Predicted transcriptional regulators [Transcription]; Region: COG1695 1234380000719 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1234380000720 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380000721 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380000722 Walker A/P-loop; other site 1234380000723 ATP binding site [chemical binding]; other site 1234380000724 Q-loop/lid; other site 1234380000725 ABC transporter signature motif; other site 1234380000726 Walker B; other site 1234380000727 D-loop; other site 1234380000728 H-loop/switch region; other site 1234380000729 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1234380000730 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1234380000731 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1234380000732 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1234380000733 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1234380000734 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 1234380000735 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1234380000736 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 1234380000737 active site 1234380000738 motif I; other site 1234380000739 motif II; other site 1234380000740 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 1234380000741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380000742 ABC transporter signature motif; other site 1234380000743 Walker B; other site 1234380000744 D-loop; other site 1234380000745 H-loop/switch region; other site 1234380000746 potential frameshift: common BLAST hit: gi|386023168|ref|YP_005941471.1| isoleucine--tRNA ligase 1234380000747 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1234380000748 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1234380000749 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1234380000750 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1234380000751 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1234380000752 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1234380000753 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1234380000754 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1234380000755 homotrimer interaction site [polypeptide binding]; other site 1234380000756 putative active site [active] 1234380000757 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1234380000758 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 1234380000759 ligand binding site [chemical binding]; other site 1234380000760 flexible hinge region; other site 1234380000761 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 1234380000762 putative switch regulator; other site 1234380000763 non-specific DNA interactions [nucleotide binding]; other site 1234380000764 DNA binding site [nucleotide binding] 1234380000765 sequence specific DNA binding site [nucleotide binding]; other site 1234380000766 putative cAMP binding site [chemical binding]; other site 1234380000767 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1234380000768 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1234380000769 minor groove reading motif; other site 1234380000770 helix-hairpin-helix signature motif; other site 1234380000771 substrate binding pocket [chemical binding]; other site 1234380000772 active site 1234380000773 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1234380000774 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1234380000775 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1234380000776 catalytic residues [active] 1234380000777 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 1234380000778 putative active site [active] 1234380000779 putative CoA binding site [chemical binding]; other site 1234380000780 nudix motif; other site 1234380000781 metal binding site [ion binding]; metal-binding site 1234380000782 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14853 1234380000783 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1234380000784 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1234380000785 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 1234380000786 helicase/secretion neighborhood ATPase; Region: heli_sec_ATPase; TIGR03819 1234380000787 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1234380000788 Walker A motif; other site 1234380000789 ATP binding site [chemical binding]; other site 1234380000790 Walker B motif; other site 1234380000791 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1234380000792 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 1234380000793 helicase/secretion neighborhood TadE-like protein; Region: tadE_like_DECH; TIGR03816 1234380000794 Predicted ATPase [General function prediction only]; Region: COG4637 1234380000795 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 1234380000796 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 1234380000797 ATP binding site [chemical binding]; other site 1234380000798 putative Mg++ binding site [ion binding]; other site 1234380000799 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 1234380000800 nucleotide binding region [chemical binding]; other site 1234380000801 ATP-binding site [chemical binding]; other site 1234380000802 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1234380000803 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1234380000804 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 1234380000805 S-adenosylmethionine binding site [chemical binding]; other site 1234380000806 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1234380000807 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1234380000808 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 1234380000809 active site 1234380000810 interdomain interaction site; other site 1234380000811 putative metal-binding site [ion binding]; other site 1234380000812 nucleotide binding site [chemical binding]; other site 1234380000813 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 1234380000814 domain I; other site 1234380000815 DNA binding groove [nucleotide binding] 1234380000816 phosphate binding site [ion binding]; other site 1234380000817 domain II; other site 1234380000818 domain III; other site 1234380000819 nucleotide binding site [chemical binding]; other site 1234380000820 catalytic site [active] 1234380000821 domain IV; other site 1234380000822 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1234380000823 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1234380000824 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1234380000825 thymidylate kinase; Validated; Region: tmk; PRK00698 1234380000826 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 1234380000827 TMP-binding site; other site 1234380000828 ATP-binding site [chemical binding]; other site 1234380000829 DNA polymerase III subunit delta'; Validated; Region: PRK07940 1234380000830 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 1234380000831 Walker A motif; other site 1234380000832 ATP binding site [chemical binding]; other site 1234380000833 Walker B motif; other site 1234380000834 arginine finger; other site 1234380000835 Predicted membrane protein [Function unknown]; Region: COG2259 1234380000836 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1234380000837 TAP-like protein; Region: Abhydrolase_4; pfam08386 1234380000838 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1234380000839 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1234380000840 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 1234380000841 catalytic core [active] 1234380000842 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 1234380000843 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1234380000844 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 1234380000845 dimer interface [polypeptide binding]; other site 1234380000846 substrate binding site [chemical binding]; other site 1234380000847 metal binding sites [ion binding]; metal-binding site 1234380000848 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1234380000849 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1234380000850 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1234380000851 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1234380000852 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 1234380000853 Ligand Binding Site [chemical binding]; other site 1234380000854 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380000855 active site 1234380000856 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1234380000857 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 1234380000858 Walker A motif; other site 1234380000859 ATP binding site [chemical binding]; other site 1234380000860 Walker B motif; other site 1234380000861 arginine finger; other site 1234380000862 Peptidase family M41; Region: Peptidase_M41; pfam01434 1234380000863 Protein of unknown function (DUF3729); Region: DUF3729; pfam12526 1234380000864 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1234380000865 homodecamer interface [polypeptide binding]; other site 1234380000866 GTP cyclohydrolase I; Provisional; Region: PLN03044 1234380000867 active site 1234380000868 putative catalytic site residues [active] 1234380000869 zinc binding site [ion binding]; other site 1234380000870 GTP-CH-I/GFRP interaction surface; other site 1234380000871 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1234380000872 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1234380000873 ligand binding site [chemical binding]; other site 1234380000874 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 1234380000875 dihydropteroate synthase; Region: DHPS; TIGR01496 1234380000876 substrate binding pocket [chemical binding]; other site 1234380000877 dimer interface [polypeptide binding]; other site 1234380000878 inhibitor binding site; inhibition site 1234380000879 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 1234380000880 homooctamer interface [polypeptide binding]; other site 1234380000881 active site 1234380000882 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 1234380000883 catalytic center binding site [active] 1234380000884 ATP binding site [chemical binding]; other site 1234380000885 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1234380000886 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 1234380000887 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1234380000888 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1234380000889 Lsr2; Region: Lsr2; pfam11774 1234380000890 Clp protease ATP binding subunit; Region: clpC; CHL00095 1234380000891 Clp amino terminal domain; Region: Clp_N; pfam02861 1234380000892 Clp amino terminal domain; Region: Clp_N; pfam02861 1234380000893 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 1234380000894 Walker A motif; other site 1234380000895 ATP binding site [chemical binding]; other site 1234380000896 Walker B motif; other site 1234380000897 arginine finger; other site 1234380000898 UvrB/uvrC motif; Region: UVR; pfam02151 1234380000899 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 1234380000900 Walker A motif; other site 1234380000901 ATP binding site [chemical binding]; other site 1234380000902 Walker B motif; other site 1234380000903 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1234380000904 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1234380000905 Predicted membrane protein [Function unknown]; Region: COG3817 1234380000906 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1234380000907 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1234380000908 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1234380000909 putative active site [active] 1234380000910 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1234380000911 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1234380000912 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1234380000913 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 1234380000914 putative substrate translocation pore; other site 1234380000915 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 1234380000916 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1234380000917 TIGR01777 family protein; Region: yfcH 1234380000918 putative NAD(P) binding site [chemical binding]; other site 1234380000919 putative active site [active] 1234380000920 Rhomboid family; Region: Rhomboid; pfam01694 1234380000921 hypothetical protein; Provisional; Region: PRK06547 1234380000922 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1234380000923 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 1234380000924 active site 1234380000925 phosphorylation site [posttranslational modification] 1234380000926 intermolecular recognition site; other site 1234380000927 dimerization interface [polypeptide binding]; other site 1234380000928 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 1234380000929 DNA binding residues [nucleotide binding] 1234380000930 dimerization interface [polypeptide binding]; other site 1234380000931 Histidine kinase; Region: HisKA_3; pfam07730 1234380000932 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 1234380000933 ATP binding site [chemical binding]; other site 1234380000934 Mg2+ binding site [ion binding]; other site 1234380000935 G-X-G motif; other site 1234380000936 CAT RNA binding domain; Region: CAT_RBD; smart01061 1234380000937 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1234380000938 PRD domain; Region: PRD; pfam00874 1234380000939 PRD domain; Region: PRD; pfam00874 1234380000940 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1234380000941 HPr interaction site; other site 1234380000942 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1234380000943 active site 1234380000944 phosphorylation site [posttranslational modification] 1234380000945 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1234380000946 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1234380000947 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 1234380000948 active site turn [active] 1234380000949 phosphorylation site [posttranslational modification] 1234380000950 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 1234380000951 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1234380000952 endonuclease III; Region: ENDO3c; smart00478 1234380000953 minor groove reading motif; other site 1234380000954 helix-hairpin-helix signature motif; other site 1234380000955 active site 1234380000956 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1234380000957 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1234380000958 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 1234380000959 inhibitor-cofactor binding pocket; inhibition site 1234380000960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380000961 catalytic residue [active] 1234380000962 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 1234380000963 dimer interface [polypeptide binding]; other site 1234380000964 active site 1234380000965 Schiff base residues; other site 1234380000966 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1234380000967 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 1234380000968 active site 1234380000969 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1234380000970 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 1234380000971 domain interfaces; other site 1234380000972 active site 1234380000973 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1234380000974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1234380000975 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 1234380000976 substrate binding site [chemical binding]; other site 1234380000977 active site 1234380000978 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1234380000979 Glutamyl-tRNAGlu reductase, N-terminal domain; Region: GlutR_N; pfam05201 1234380000980 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1234380000981 ferrochelatase; Reviewed; Region: hemH; PRK00035 1234380000982 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 1234380000983 C-terminal domain interface [polypeptide binding]; other site 1234380000984 active site 1234380000985 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 1234380000986 active site 1234380000987 N-terminal domain interface [polypeptide binding]; other site 1234380000988 Chlorite dismutase; Region: Chlor_dismutase; pfam06778 1234380000989 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 1234380000990 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1234380000991 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 1234380000992 DNA repair protein RadA; Provisional; Region: PRK11823 1234380000993 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1234380000994 Walker A motif; other site 1234380000995 ATP binding site [chemical binding]; other site 1234380000996 Walker B motif; other site 1234380000997 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1234380000998 malate dehydrogenase; Provisional; Region: PRK13529 1234380000999 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1234380001000 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1234380001001 NAD(P) binding site [chemical binding]; other site 1234380001002 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1234380001003 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 1234380001004 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1234380001005 AP (apurinic/apyrimidinic) site pocket; other site 1234380001006 DNA interaction; other site 1234380001007 Metal-binding active site; metal-binding site 1234380001008 Proline dehydrogenase; Region: Pro_dh; cl03282 1234380001009 CAAX protease self-immunity; Region: Abi; pfam02517 1234380001010 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1234380001011 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1234380001012 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1234380001013 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1234380001014 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1234380001015 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 1234380001016 active site 1234380001017 homodimer interface [polypeptide binding]; other site 1234380001018 SAM binding site [chemical binding]; other site 1234380001019 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1234380001020 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 1234380001021 active site 1234380001022 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 1234380001023 catalytic core [active] 1234380001024 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1234380001025 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1234380001026 catalytic residues [active] 1234380001027 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1234380001028 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1234380001029 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1234380001030 ResB-like family; Region: ResB; pfam05140 1234380001031 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1234380001032 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1234380001033 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1234380001034 Sporulation and spore germination; Region: Germane; pfam10646 1234380001035 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1234380001036 classical (c) SDRs; Region: SDR_c; cd05233 1234380001037 NAD(P) binding site [chemical binding]; other site 1234380001038 active site 1234380001039 mycothione reductase; Reviewed; Region: PRK07846 1234380001040 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380001041 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1234380001042 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1234380001043 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 1234380001044 intersubunit interface [polypeptide binding]; other site 1234380001045 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1234380001046 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1234380001047 Walker A/P-loop; other site 1234380001048 ATP binding site [chemical binding]; other site 1234380001049 Q-loop/lid; other site 1234380001050 ABC transporter signature motif; other site 1234380001051 Walker B; other site 1234380001052 D-loop; other site 1234380001053 H-loop/switch region; other site 1234380001054 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1234380001055 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 1234380001056 ABC-ATPase subunit interface; other site 1234380001057 dimer interface [polypeptide binding]; other site 1234380001058 putative PBP binding regions; other site 1234380001059 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1234380001060 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 1234380001061 FAD binding pocket [chemical binding]; other site 1234380001062 FAD binding motif [chemical binding]; other site 1234380001063 phosphate binding motif [ion binding]; other site 1234380001064 NAD binding pocket [chemical binding]; other site 1234380001065 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 1234380001066 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1234380001067 Walker A/P-loop; other site 1234380001068 ATP binding site [chemical binding]; other site 1234380001069 Q-loop/lid; other site 1234380001070 ABC transporter signature motif; other site 1234380001071 Walker B; other site 1234380001072 D-loop; other site 1234380001073 H-loop/switch region; other site 1234380001074 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1234380001075 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 1234380001076 dimer interface [polypeptide binding]; other site 1234380001077 conserved gate region; other site 1234380001078 putative PBP binding loops; other site 1234380001079 ABC-ATPase subunit interface; other site 1234380001080 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1234380001081 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 1234380001082 dimer interface [polypeptide binding]; other site 1234380001083 conserved gate region; other site 1234380001084 putative PBP binding loops; other site 1234380001085 ABC-ATPase subunit interface; other site 1234380001086 PBP superfamily domain; Region: PBP_like_2; cl17296 1234380001087 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 1234380001088 active site 1234380001089 Ap6A binding site [chemical binding]; other site 1234380001090 nudix motif; other site 1234380001091 metal binding site [ion binding]; metal-binding site 1234380001092 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 1234380001093 catalytic core [active] 1234380001094 polyphosphate kinase; Provisional; Region: PRK05443 1234380001095 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1234380001096 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1234380001097 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1234380001098 putative domain interface [polypeptide binding]; other site 1234380001099 putative active site [active] 1234380001100 catalytic site [active] 1234380001101 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1234380001102 putative domain interface [polypeptide binding]; other site 1234380001103 putative active site [active] 1234380001104 catalytic site [active] 1234380001105 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1234380001106 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 1234380001107 DNA binding site [nucleotide binding] 1234380001108 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 1234380001109 putative active site [active] 1234380001110 dimerization interface [polypeptide binding]; other site 1234380001111 putative tRNAtyr binding site [nucleotide binding]; other site 1234380001112 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 1234380001113 heme-binding site [chemical binding]; other site 1234380001114 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1234380001115 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1234380001116 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1234380001117 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1234380001118 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1234380001119 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1234380001120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1234380001121 NAD(P) binding site [chemical binding]; other site 1234380001122 active site 1234380001123 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1234380001124 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1234380001125 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1234380001126 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1234380001127 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 1234380001128 dimerization domain swap beta strand [polypeptide binding]; other site 1234380001129 regulatory protein interface [polypeptide binding]; other site 1234380001130 active site 1234380001131 regulatory phosphorylation site [posttranslational modification]; other site 1234380001132 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1234380001133 substrate binding site; other site 1234380001134 dimer interface; other site 1234380001135 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; cl10030 1234380001136 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 1234380001137 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 1234380001138 active site 1234380001139 P-loop; other site 1234380001140 phosphorylation site [posttranslational modification] 1234380001141 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1234380001142 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1234380001143 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 1234380001144 active site 1234380001145 phosphorylation site [posttranslational modification] 1234380001146 intermolecular recognition site; other site 1234380001147 dimerization interface [polypeptide binding]; other site 1234380001148 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 1234380001149 DNA binding site [nucleotide binding] 1234380001150 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1234380001151 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 1234380001152 dimer interface [polypeptide binding]; other site 1234380001153 phosphorylation site [posttranslational modification] 1234380001154 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 1234380001155 ATP binding site [chemical binding]; other site 1234380001156 Mg2+ binding site [ion binding]; other site 1234380001157 G-X-G motif; other site 1234380001158 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1234380001159 PhoU domain; Region: PhoU; pfam01895 1234380001160 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1234380001161 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1234380001162 NodB motif; other site 1234380001163 active site 1234380001164 catalytic site [active] 1234380001165 Zn binding site [ion binding]; other site 1234380001166 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 1234380001167 catalytic core [active] 1234380001168 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1234380001169 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 1234380001170 active site 1234380001171 phosphorylation site [posttranslational modification] 1234380001172 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 1234380001173 active site 1234380001174 P-loop; other site 1234380001175 phosphorylation site [posttranslational modification] 1234380001176 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1234380001177 active site 1234380001178 homodimer interface [polypeptide binding]; other site 1234380001179 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1234380001180 serine hydroxymethyltransferase; Provisional; Region: PRK13580 1234380001181 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 1234380001182 dimer interface [polypeptide binding]; other site 1234380001183 active site 1234380001184 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1234380001185 folate binding site [chemical binding]; other site 1234380001186 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1234380001187 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 1234380001188 substrate binding site [chemical binding]; other site 1234380001189 ATP binding site [chemical binding]; other site 1234380001190 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1234380001191 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1234380001192 active site 1234380001193 intersubunit interface [polypeptide binding]; other site 1234380001194 catalytic residue [active] 1234380001195 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1234380001196 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1234380001197 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1234380001198 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 1234380001199 substrate binding site [chemical binding]; other site 1234380001200 catalytic residues [active] 1234380001201 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 1234380001202 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 1234380001203 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1234380001204 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1234380001205 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1234380001206 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1234380001207 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1234380001208 active site 1234380001209 HIGH motif; other site 1234380001210 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1234380001211 KMSKS motif; other site 1234380001212 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1234380001213 tRNA binding surface [nucleotide binding]; other site 1234380001214 anticodon binding site; other site 1234380001215 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 1234380001216 Asp23 family; Region: Asp23; pfam03780 1234380001217 RNA polymerase sigma factor; Provisional; Region: PRK11924 1234380001218 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1234380001219 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 1234380001220 DNA binding residues [nucleotide binding] 1234380001221 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1234380001222 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1234380001223 Walker A/P-loop; other site 1234380001224 ATP binding site [chemical binding]; other site 1234380001225 Q-loop/lid; other site 1234380001226 ABC transporter signature motif; other site 1234380001227 Walker B; other site 1234380001228 D-loop; other site 1234380001229 H-loop/switch region; other site 1234380001230 TOBE domain; Region: TOBE_2; pfam08402 1234380001231 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1234380001232 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1234380001233 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1234380001234 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 1234380001235 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1234380001236 putative DNA binding site [nucleotide binding]; other site 1234380001237 putative Zn2+ binding site [ion binding]; other site 1234380001238 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1234380001239 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1234380001240 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1234380001241 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1234380001242 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1234380001243 potential frameshift: common BLAST hit: gi|387502766|ref|YP_005943995.1| Tat (twin-arginine translocation) pathway signal sequence 1234380001244 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 1234380001245 dimer interface [polypeptide binding]; other site 1234380001246 conserved gate region; other site 1234380001247 putative PBP binding loops; other site 1234380001248 ABC-ATPase subunit interface; other site 1234380001249 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380001250 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 1234380001251 dimer interface [polypeptide binding]; other site 1234380001252 conserved gate region; other site 1234380001253 ABC-ATPase subunit interface; other site 1234380001254 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1234380001255 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1234380001256 NAD(P) binding site [chemical binding]; other site 1234380001257 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1234380001258 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 1234380001259 substrate-cofactor binding pocket; other site 1234380001260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380001261 catalytic residue [active] 1234380001262 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1234380001263 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 1234380001264 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 1234380001265 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1234380001266 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380001267 Walker A/P-loop; other site 1234380001268 ATP binding site [chemical binding]; other site 1234380001269 Q-loop/lid; other site 1234380001270 ABC transporter signature motif; other site 1234380001271 Walker B; other site 1234380001272 D-loop; other site 1234380001273 H-loop/switch region; other site 1234380001274 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1234380001275 Protein of unknown function, DUF488; Region: DUF488; cl01246 1234380001276 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 1234380001277 putative ADP-ribose binding site [chemical binding]; other site 1234380001278 putative active site [active] 1234380001279 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1234380001280 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1234380001281 NAD(P) binding site [chemical binding]; other site 1234380001282 substrate binding site [chemical binding]; other site 1234380001283 dimer interface [polypeptide binding]; other site 1234380001284 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1234380001285 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1234380001286 Walker A/P-loop; other site 1234380001287 ATP binding site [chemical binding]; other site 1234380001288 Q-loop/lid; other site 1234380001289 ABC transporter signature motif; other site 1234380001290 Walker B; other site 1234380001291 D-loop; other site 1234380001292 H-loop/switch region; other site 1234380001293 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1234380001294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1234380001295 Histidine kinase; Region: HisKA_3; pfam07730 1234380001296 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 1234380001297 ATP binding site [chemical binding]; other site 1234380001298 Mg2+ binding site [ion binding]; other site 1234380001299 G-X-G motif; other site 1234380001300 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1234380001301 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 1234380001302 active site 1234380001303 phosphorylation site [posttranslational modification] 1234380001304 intermolecular recognition site; other site 1234380001305 dimerization interface [polypeptide binding]; other site 1234380001306 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 1234380001307 DNA binding residues [nucleotide binding] 1234380001308 dimerization interface [polypeptide binding]; other site 1234380001309 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 1234380001310 catalytic core [active] 1234380001311 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 1234380001312 cobyric acid synthase; Provisional; Region: PRK00784 1234380001313 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 1234380001314 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 1234380001315 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1234380001316 catalytic triad [active] 1234380001317 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1234380001318 active site 1234380001319 SAM binding site [chemical binding]; other site 1234380001320 homodimer interface [polypeptide binding]; other site 1234380001321 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1234380001322 active site 1234380001323 SAM binding site [chemical binding]; other site 1234380001324 homodimer interface [polypeptide binding]; other site 1234380001325 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1234380001326 putative homodimer interface [polypeptide binding]; other site 1234380001327 active site 1234380001328 SAM binding site [chemical binding]; other site 1234380001329 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1234380001330 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1234380001331 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1234380001332 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1234380001333 active site 1234380001334 SAM binding site [chemical binding]; other site 1234380001335 homodimer interface [polypeptide binding]; other site 1234380001336 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 1234380001337 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 1234380001338 putative active site [active] 1234380001339 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 1234380001340 putative active site [active] 1234380001341 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1234380001342 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1234380001343 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1234380001344 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1234380001345 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 1234380001346 putative PBP binding regions; other site 1234380001347 ABC-ATPase subunit interface; other site 1234380001348 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1234380001349 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1234380001350 Walker A/P-loop; other site 1234380001351 ATP binding site [chemical binding]; other site 1234380001352 Q-loop/lid; other site 1234380001353 ABC transporter signature motif; other site 1234380001354 Walker B; other site 1234380001355 D-loop; other site 1234380001356 H-loop/switch region; other site 1234380001357 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 1234380001358 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1234380001359 intersubunit interface [polypeptide binding]; other site 1234380001360 potential frameshift: common BLAST hit: gi|386023369|ref|YP_005941672.1| ATPase of the AAA superfamily 1234380001361 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1234380001362 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1234380001363 cobalt transport protein CbiM; Validated; Region: PRK08319 1234380001364 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1234380001365 cobalt transport protein CbiN; Provisional; Region: PRK02898 1234380001366 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1234380001367 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1234380001368 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1234380001369 Walker A/P-loop; other site 1234380001370 ATP binding site [chemical binding]; other site 1234380001371 Q-loop/lid; other site 1234380001372 ABC transporter signature motif; other site 1234380001373 Walker B; other site 1234380001374 D-loop; other site 1234380001375 H-loop/switch region; other site 1234380001376 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1234380001377 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1234380001378 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1234380001379 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1234380001380 homodimer interface [polypeptide binding]; other site 1234380001381 Walker A motif; other site 1234380001382 ATP binding site [chemical binding]; other site 1234380001383 hydroxycobalamin binding site [chemical binding]; other site 1234380001384 Walker B motif; other site 1234380001385 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1234380001386 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1234380001387 catalytic triad [active] 1234380001388 hypothetical protein; Provisional; Region: PRK07908 1234380001389 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 1234380001390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380001391 homodimer interface [polypeptide binding]; other site 1234380001392 catalytic residue [active] 1234380001393 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1234380001394 homodimer interface [polypeptide binding]; other site 1234380001395 active site 1234380001396 SAM binding site [chemical binding]; other site 1234380001397 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 1234380001398 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1234380001399 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1234380001400 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1234380001401 putative dimer interface [polypeptide binding]; other site 1234380001402 active site pocket [active] 1234380001403 putative cataytic base [active] 1234380001404 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 1234380001405 homotrimer interface [polypeptide binding]; other site 1234380001406 Walker A motif; other site 1234380001407 GTP binding site [chemical binding]; other site 1234380001408 Walker B motif; other site 1234380001409 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1234380001410 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 1234380001411 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1234380001412 intersubunit interface [polypeptide binding]; other site 1234380001413 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1234380001414 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 1234380001415 active site 1234380001416 phosphorylation site [posttranslational modification] 1234380001417 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 1234380001418 active site 1234380001419 P-loop; other site 1234380001420 phosphorylation site [posttranslational modification] 1234380001421 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 1234380001422 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1234380001423 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1234380001424 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1234380001425 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1234380001426 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1234380001427 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 1234380001428 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1234380001429 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 1234380001430 ring oligomerisation interface [polypeptide binding]; other site 1234380001431 ATP/Mg binding site [chemical binding]; other site 1234380001432 stacking interactions; other site 1234380001433 hinge regions; other site 1234380001434 Transaldolase; Region: Transaldolase; pfam00923 1234380001435 catalytic residue [active] 1234380001436 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1234380001437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1234380001438 DNA-binding site [nucleotide binding]; DNA binding site 1234380001439 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1234380001440 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1234380001441 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 1234380001442 substrate binding site [chemical binding]; other site 1234380001443 ATP binding site [chemical binding]; other site 1234380001444 KduI/IolB family; Region: KduI; pfam04962 1234380001445 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1234380001446 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1234380001447 PYR/PP interface [polypeptide binding]; other site 1234380001448 dimer interface [polypeptide binding]; other site 1234380001449 TPP binding site [chemical binding]; other site 1234380001450 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; cd00368 1234380001451 molybdopterin cofactor binding site; other site 1234380001452 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 1234380001453 TPP-binding site; other site 1234380001454 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1234380001455 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1234380001456 tetrameric interface [polypeptide binding]; other site 1234380001457 NAD binding site [chemical binding]; other site 1234380001458 catalytic residues [active] 1234380001459 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380001460 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380001461 DNA binding site [nucleotide binding] 1234380001462 domain linker motif; other site 1234380001463 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 1234380001464 dimerization interface [polypeptide binding]; other site 1234380001465 ligand binding site [chemical binding]; other site 1234380001466 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1234380001467 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1234380001468 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1234380001469 potential frameshift: common BLAST hit: gi|387502832|ref|YP_005944061.1| sugar phosphate isomerase/epimerase 1234380001470 potential frameshift: common BLAST hit: gi|387502833|ref|YP_005944062.1| myo-inositol catabolism IolH protein 1234380001471 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1234380001472 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1234380001473 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1234380001474 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1234380001475 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 1234380001476 putative substrate translocation pore; other site 1234380001477 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 1234380001478 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1234380001479 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1234380001480 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1234380001481 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 1234380001482 DNA interaction; other site 1234380001483 Metal-binding active site; metal-binding site 1234380001484 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1234380001485 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1234380001486 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1234380001487 CAAX protease self-immunity; Region: Abi; pfam02517 1234380001488 CutC family; Region: CutC; cl01218 1234380001489 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1234380001490 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1234380001491 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1234380001492 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 1234380001493 ATP binding site [chemical binding]; other site 1234380001494 putative Mg++ binding site [ion binding]; other site 1234380001495 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 1234380001496 nucleotide binding region [chemical binding]; other site 1234380001497 ATP-binding site [chemical binding]; other site 1234380001498 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1234380001499 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1234380001500 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 1234380001501 active site 1234380001502 trimer interface [polypeptide binding]; other site 1234380001503 allosteric site; other site 1234380001504 active site lid [active] 1234380001505 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1234380001506 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 1234380001507 DNA-binding site [nucleotide binding]; DNA binding site 1234380001508 RNA-binding motif; other site 1234380001509 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 1234380001510 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1234380001511 phosphoserine aminotransferase; Provisional; Region: PRK03080 1234380001512 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1234380001513 catalytic residue [active] 1234380001514 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 1234380001515 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1234380001516 active site 1234380001517 dimer interface [polypeptide binding]; other site 1234380001518 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1234380001519 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1234380001520 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1234380001521 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 1234380001522 catalytic residues [active] 1234380001523 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1234380001524 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 1234380001525 putative substrate translocation pore; other site 1234380001526 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 1234380001527 Eukaryotic UGPase catalyses the synthesis of UDP-Glucose; Region: UGPase_euk; cd00897 1234380001528 active site 1234380001529 substrate binding site; other site 1234380001530 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1234380001531 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1234380001532 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1234380001533 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1234380001534 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1234380001535 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1234380001536 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 1234380001537 dimer interface [polypeptide binding]; other site 1234380001538 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1234380001539 putative MPT binding site; other site 1234380001540 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1234380001541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1234380001542 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1234380001543 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 1234380001544 trimer interface [polypeptide binding]; other site 1234380001545 dimer interface [polypeptide binding]; other site 1234380001546 putative active site [active] 1234380001547 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1234380001548 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 1234380001549 dimer interface [polypeptide binding]; other site 1234380001550 putative functional site; other site 1234380001551 putative MPT binding site; other site 1234380001552 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 1234380001553 MoaE homodimer interface [polypeptide binding]; other site 1234380001554 MoaD interaction [polypeptide binding]; other site 1234380001555 active site residues [active] 1234380001556 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1234380001557 MoaE interaction surface [polypeptide binding]; other site 1234380001558 MoeB interaction surface [polypeptide binding]; other site 1234380001559 thiocarboxylated glycine; other site 1234380001560 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1234380001561 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 1234380001562 FeS/SAM binding site; other site 1234380001563 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1234380001564 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1234380001565 DNA binding residues [nucleotide binding] 1234380001566 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1234380001567 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1234380001568 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1234380001569 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1234380001570 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 1234380001571 dimer interface [polypeptide binding]; other site 1234380001572 conserved gate region; other site 1234380001573 putative PBP binding loops; other site 1234380001574 ABC-ATPase subunit interface; other site 1234380001575 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1234380001576 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380001577 Walker A/P-loop; other site 1234380001578 ATP binding site [chemical binding]; other site 1234380001579 Q-loop/lid; other site 1234380001580 ABC transporter signature motif; other site 1234380001581 Walker B; other site 1234380001582 D-loop; other site 1234380001583 H-loop/switch region; other site 1234380001584 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1234380001585 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1234380001586 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1234380001587 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1234380001588 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1234380001589 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 1234380001590 [4Fe-4S] binding site [ion binding]; other site 1234380001591 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 1234380001592 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 1234380001593 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 1234380001594 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 1234380001595 molybdopterin cofactor binding site; other site 1234380001596 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1234380001597 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 1234380001598 putative substrate translocation pore; other site 1234380001599 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1234380001600 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1234380001601 GTP binding site; other site 1234380001602 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380001603 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380001604 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380001605 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 1234380001606 MPT binding site; other site 1234380001607 trimer interface [polypeptide binding]; other site 1234380001608 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 1234380001609 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1234380001610 4Fe-4S binding domain; Region: Fer4; pfam00037 1234380001611 potential frameshift: common BLAST hit: gi|387502890|ref|YP_005944119.1| anaerobic dimethyl sulfoxide reductase subunit A 1234380001612 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1234380001613 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 1234380001614 ATP binding site [chemical binding]; other site 1234380001615 substrate interface [chemical binding]; other site 1234380001616 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 1234380001617 ThiS interaction site; other site 1234380001618 putative active site [active] 1234380001619 tetramer interface [polypeptide binding]; other site 1234380001620 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1234380001621 thiS-thiF/thiG interaction site; other site 1234380001622 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1234380001623 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1234380001624 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1234380001625 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1234380001626 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1234380001627 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1234380001628 Predicted methyltransferases [General function prediction only]; Region: COG0313 1234380001629 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1234380001630 putative SAM binding site [chemical binding]; other site 1234380001631 putative homodimer interface [polypeptide binding]; other site 1234380001632 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1234380001633 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1234380001634 active site 1234380001635 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1234380001636 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1234380001637 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 1234380001638 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1234380001639 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1234380001640 MarR family; Region: MarR_2; cl17246 1234380001641 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1234380001642 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380001643 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14360 1234380001644 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1234380001645 Substrate binding site; other site 1234380001646 Mg++ binding site; other site 1234380001647 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 1234380001648 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1234380001649 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 1234380001650 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380001651 active site 1234380001652 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1234380001653 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1234380001654 5S rRNA interface [nucleotide binding]; other site 1234380001655 CTC domain interface [polypeptide binding]; other site 1234380001656 L16 interface [polypeptide binding]; other site 1234380001657 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 1234380001658 putative active site [active] 1234380001659 catalytic residue [active] 1234380001660 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1234380001661 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1234380001662 NAD binding site [chemical binding]; other site 1234380001663 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1234380001664 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 1234380001665 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1234380001666 putative NAD(P) binding site [chemical binding]; other site 1234380001667 catalytic Zn binding site [ion binding]; other site 1234380001668 structural Zn binding site [ion binding]; other site 1234380001669 Protease prsW family; Region: PrsW-protease; pfam13367 1234380001670 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1234380001671 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1234380001672 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 1234380001673 ATP binding site [chemical binding]; other site 1234380001674 putative Mg++ binding site [ion binding]; other site 1234380001675 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 1234380001676 nucleotide binding region [chemical binding]; other site 1234380001677 ATP-binding site [chemical binding]; other site 1234380001678 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1234380001679 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 1234380001680 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12333 1234380001681 homodimer interface [polypeptide binding]; other site 1234380001682 metal binding site [ion binding]; metal-binding site 1234380001683 enolase; Provisional; Region: eno; PRK00077 1234380001684 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 1234380001685 dimer interface [polypeptide binding]; other site 1234380001686 metal binding site [ion binding]; metal-binding site 1234380001687 substrate binding pocket [chemical binding]; other site 1234380001688 Septum formation initiator; Region: DivIC; pfam04977 1234380001689 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1234380001690 Protein of unknown function (DUF501); Region: DUF501; pfam04417 1234380001691 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1234380001692 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1234380001693 Bax inhibitor 1 like; Region: BaxI_1; cl17691 1234380001694 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, 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_25; cd04684 1234380001695 nudix motif; other site 1234380001696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1234380001697 Coenzyme A binding pocket [chemical binding]; other site 1234380001698 Predicted membrane protein [Function unknown]; Region: COG2246 1234380001699 GtrA-like protein; Region: GtrA; pfam04138 1234380001700 Predicted membrane protein [Function unknown]; Region: COG1297 1234380001701 putative oligopeptide transporter, OPT family; Region: TIGR00733 1234380001702 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 1234380001703 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1234380001704 active site 1234380001705 catalytic tetrad [active] 1234380001706 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1234380001707 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1234380001708 Na2 binding site [ion binding]; other site 1234380001709 putative substrate binding site 1 [chemical binding]; other site 1234380001710 Na binding site 1 [ion binding]; other site 1234380001711 putative substrate binding site 2 [chemical binding]; other site 1234380001712 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1234380001713 ligand binding site [chemical binding]; other site 1234380001714 active site 1234380001715 UGI interface [polypeptide binding]; other site 1234380001716 catalytic site [active] 1234380001717 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1234380001718 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1234380001719 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1234380001720 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1234380001721 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1234380001722 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 1234380001723 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1234380001724 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1234380001725 catalytic residues [active] 1234380001726 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1234380001727 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1234380001728 catalytic residue [active] 1234380001729 putative FPP diphosphate binding site; other site 1234380001730 putative FPP binding hydrophobic cleft; other site 1234380001731 dimer interface [polypeptide binding]; other site 1234380001732 putative IPP diphosphate binding site; other site 1234380001733 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1234380001734 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1234380001735 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1234380001736 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1234380001737 putative active site [active] 1234380001738 PhoH-like protein; Region: PhoH; pfam02562 1234380001739 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 1234380001740 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1234380001741 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1234380001742 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 1234380001743 generic binding surface II; other site 1234380001744 generic binding surface I; other site 1234380001745 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1234380001746 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1234380001747 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1234380001748 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1234380001749 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1234380001750 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1234380001751 RmuC family; Region: RmuC; pfam02646 1234380001752 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1234380001753 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1234380001754 active site 1234380001755 metal binding site [ion binding]; metal-binding site 1234380001756 GTP-binding protein YchF; Reviewed; Region: PRK09601 1234380001757 YchF GTPase; Region: YchF; cd01900 1234380001758 G1 box; other site 1234380001759 GTP/Mg2+ binding site [chemical binding]; other site 1234380001760 Switch I region; other site 1234380001761 G2 box; other site 1234380001762 Switch II region; other site 1234380001763 G3 box; other site 1234380001764 G4 box; other site 1234380001765 G5 box; other site 1234380001766 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 1234380001767 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 1234380001768 putative substrate translocation pore; other site 1234380001769 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1234380001770 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1234380001771 MarR family; Region: MarR; pfam01047 1234380001772 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1234380001773 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1234380001774 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1234380001775 potential catalytic triad [active] 1234380001776 conserved cys residue [active] 1234380001777 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1234380001778 Spore germination protein; Region: Spore_permease; cl17796 1234380001779 arginine deiminase; Provisional; Region: PRK01388 1234380001780 ornithine carbamoyltransferase; Validated; Region: PRK02102 1234380001781 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1234380001782 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1234380001783 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1234380001784 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 1234380001785 putative substrate binding site [chemical binding]; other site 1234380001786 nucleotide binding site [chemical binding]; other site 1234380001787 nucleotide binding site [chemical binding]; other site 1234380001788 homodimer interface [polypeptide binding]; other site 1234380001789 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1234380001790 Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in...; Region: PTH2_family; cl00869 1234380001791 dimer interface [polypeptide binding]; other site 1234380001792 putative active site [active] 1234380001793 ACT domain; Region: ACT_6; pfam13740 1234380001794 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1234380001795 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1234380001796 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 1234380001797 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1234380001798 active site 1234380001799 catalytic tetrad [active] 1234380001800 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 1234380001801 dimer interface [polypeptide binding]; other site 1234380001802 catalytic triad [active] 1234380001803 peroxidatic and resolving cysteines [active] 1234380001804 lysine transporter; Provisional; Region: PRK10836 1234380001805 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like; cd11354 1234380001806 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1234380001807 active site 1234380001808 catalytic site [active] 1234380001809 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1234380001810 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1234380001811 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1234380001812 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1234380001813 potential frameshift: common BLAST hit: gi|387502971|ref|YP_005944200.1| putative lysophospholipase 1234380001814 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 1234380001815 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 1234380001816 heterodimer interface [polypeptide binding]; other site 1234380001817 substrate interaction site [chemical binding]; other site 1234380001818 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1234380001819 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 1234380001820 active site 1234380001821 substrate binding site [chemical binding]; other site 1234380001822 coenzyme B12 binding site [chemical binding]; other site 1234380001823 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1234380001824 B12 binding site [chemical binding]; other site 1234380001825 cobalt ligand [ion binding]; other site 1234380001826 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1234380001827 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1234380001828 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1234380001829 Walker A; other site 1234380001830 G1 box; other site 1234380001831 GTP/Mg2+ binding site [chemical binding]; other site 1234380001832 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1234380001833 active site 1234380001834 catalytic triad [active] 1234380001835 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 1234380001836 RNA binding surface [nucleotide binding]; other site 1234380001837 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1234380001838 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1234380001839 Walker A/P-loop; other site 1234380001840 ATP binding site [chemical binding]; other site 1234380001841 Q-loop/lid; other site 1234380001842 ABC transporter signature motif; other site 1234380001843 Walker B; other site 1234380001844 D-loop; other site 1234380001845 H-loop/switch region; other site 1234380001846 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 1234380001847 dimer interface [polypeptide binding]; other site 1234380001848 ABC-ATPase subunit interface; other site 1234380001849 putative PBP binding loops; other site 1234380001850 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380001851 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380001852 DNA binding site [nucleotide binding] 1234380001853 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 1234380001854 ligand binding site [chemical binding]; other site 1234380001855 dimerization interface (open form) [polypeptide binding]; other site 1234380001856 dimerization interface (closed form) [polypeptide binding]; other site 1234380001857 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1234380001858 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1234380001859 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1234380001860 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1234380001861 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380001862 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 1234380001863 dimer interface [polypeptide binding]; other site 1234380001864 conserved gate region; other site 1234380001865 putative PBP binding loops; other site 1234380001866 ABC-ATPase subunit interface; other site 1234380001867 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1234380001868 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1234380001869 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1234380001870 trimer interface [polypeptide binding]; other site 1234380001871 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1234380001872 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1234380001873 substrate binding site [chemical binding]; other site 1234380001874 Mn binding site [ion binding]; other site 1234380001875 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 1234380001876 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380001877 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380001878 Walker A/P-loop; other site 1234380001879 ATP binding site [chemical binding]; other site 1234380001880 Q-loop/lid; other site 1234380001881 ABC transporter signature motif; other site 1234380001882 Walker B; other site 1234380001883 D-loop; other site 1234380001884 H-loop/switch region; other site 1234380001885 FtsX-like permease family; Region: FtsX; pfam02687 1234380001886 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1234380001887 dimer interface [polypeptide binding]; other site 1234380001888 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1234380001889 putative PBP binding regions; other site 1234380001890 ABC-ATPase subunit interface; other site 1234380001891 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1234380001892 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1234380001893 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 1234380001894 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1234380001895 intersubunit interface [polypeptide binding]; other site 1234380001896 Isochorismatase family; Region: Isochorismatase; pfam00857 1234380001897 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 1234380001898 catalytic triad [active] 1234380001899 conserved cis-peptide bond; other site 1234380001900 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1234380001901 Na binding site [ion binding]; other site 1234380001902 Proline dehydrogenase; Region: Pro_dh; cl03282 1234380001903 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1234380001904 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1234380001905 Glutamate binding site [chemical binding]; other site 1234380001906 NAD binding site [chemical binding]; other site 1234380001907 catalytic residues [active] 1234380001908 potential frameshift: common BLAST hit: gi|365964580|ref|YP_004946145.1| dihydroxyacetone kinase 1234380001909 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1234380001910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380001911 active site 1234380001912 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1234380001913 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1234380001914 Coenzyme A binding pocket [chemical binding]; other site 1234380001915 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1234380001916 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1234380001917 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1234380001918 ligand binding site [chemical binding]; other site 1234380001919 homodimer interface [polypeptide binding]; other site 1234380001920 NAD(P) binding site [chemical binding]; other site 1234380001921 trimer interface B [polypeptide binding]; other site 1234380001922 trimer interface A [polypeptide binding]; other site 1234380001923 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1234380001924 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1234380001925 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 1234380001926 Ferredoxin [Energy production and conversion]; Region: COG1146 1234380001927 4Fe-4S binding domain; Region: Fer4; pfam00037 1234380001928 succinyldiaminopimelate transaminase; Region: DapC_actino; TIGR03539 1234380001929 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 1234380001930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380001931 homodimer interface [polypeptide binding]; other site 1234380001932 catalytic residue [active] 1234380001933 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 1234380001934 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1234380001935 putative trimer interface [polypeptide binding]; other site 1234380001936 putative CoA binding site [chemical binding]; other site 1234380001937 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1234380001938 Amidinotransferase; Region: Amidinotransf; cl12043 1234380001939 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1234380001940 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 1234380001941 metabolite-proton symporter; Region: 2A0106; TIGR00883 1234380001942 putative substrate translocation pore; other site 1234380001943 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 1234380001944 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 1234380001945 metal binding site [ion binding]; metal-binding site 1234380001946 putative dimer interface [polypeptide binding]; other site 1234380001947 DivIVA domain; Region: DivI1A_domain; TIGR03544 1234380001948 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 1234380001949 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 1234380001950 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 1234380001951 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 1234380001952 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1234380001953 ligand binding site; other site 1234380001954 oligomer interface; other site 1234380001955 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 1234380001956 dimer interface [polypeptide binding]; other site 1234380001957 N-terminal domain interface [polypeptide binding]; other site 1234380001958 sulfate 1 binding site; other site 1234380001959 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 1234380001960 S-adenosylmethionine binding site [chemical binding]; other site 1234380001961 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1234380001962 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1234380001963 dimer interface [polypeptide binding]; other site 1234380001964 active site 1234380001965 catalytic residue [active] 1234380001966 sec-independent translocase; Provisional; Region: PRK01371 1234380001967 Domain of unknown function DUF59; Region: DUF59; pfam01883 1234380001968 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1234380001969 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 1234380001970 Walker A motif; other site 1234380001971 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 1234380001972 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1234380001973 MgtE intracellular N domain; Region: MgtE_N; smart00924 1234380001974 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 1234380001975 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1234380001976 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 1234380001977 proline aminopeptidase P II; Provisional; Region: PRK10879 1234380001978 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 1234380001979 active site 1234380001980 ribonuclease E; Reviewed; Region: rne; PRK10811 1234380001981 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1234380001982 Putative zinc ribbon domain; Region: DUF164; pfam02591 1234380001983 YcfA-like protein; Region: YcfA; cl00752 1234380001984 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1234380001985 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 1234380001986 intersubunit interface [polypeptide binding]; other site 1234380001987 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1234380001988 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 1234380001989 ABC-ATPase subunit interface; other site 1234380001990 dimer interface [polypeptide binding]; other site 1234380001991 putative PBP binding regions; other site 1234380001992 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1234380001993 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1234380001994 Walker A/P-loop; other site 1234380001995 ATP binding site [chemical binding]; other site 1234380001996 Q-loop/lid; other site 1234380001997 ABC transporter signature motif; other site 1234380001998 Walker B; other site 1234380001999 D-loop; other site 1234380002000 H-loop/switch region; other site 1234380002001 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1234380002002 dimer interface [polypeptide binding]; other site 1234380002003 [2Fe-2S] cluster binding site [ion binding]; other site 1234380002004 Protein of unknown function (DUF466); Region: DUF466; cl01082 1234380002005 carbon starvation protein A; Provisional; Region: PRK15015 1234380002006 Carbon starvation protein CstA; Region: CstA; pfam02554 1234380002007 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1234380002008 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1234380002009 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 1234380002010 active site 1234380002011 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 1234380002012 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1234380002013 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1234380002014 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1234380002015 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 1234380002016 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1234380002017 metal binding triad; other site 1234380002018 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1234380002019 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1234380002020 metal binding triad; other site 1234380002021 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1234380002022 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1234380002023 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1234380002024 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1234380002025 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1234380002026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1234380002027 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1234380002028 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 1234380002029 putative active site [active] 1234380002030 glutamine synthetase, type I; Region: GlnA; TIGR00653 1234380002031 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1234380002032 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1234380002033 RDD family; Region: RDD; pfam06271 1234380002034 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1234380002035 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1234380002036 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1234380002037 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1234380002038 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1234380002039 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1234380002040 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1234380002041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1234380002042 DNA-binding site [nucleotide binding]; DNA binding site 1234380002043 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1234380002044 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 1234380002045 active site turn [active] 1234380002046 phosphorylation site [posttranslational modification] 1234380002047 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 1234380002048 active site turn [active] 1234380002049 phosphorylation site [posttranslational modification] 1234380002050 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1234380002051 HPr interaction site; other site 1234380002052 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1234380002053 active site 1234380002054 phosphorylation site [posttranslational modification] 1234380002055 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1234380002056 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1234380002057 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1234380002058 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1234380002059 ABC transporter; Region: ABC_tran_2; pfam12848 1234380002060 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1234380002061 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 1234380002062 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1234380002063 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1234380002064 Asp-box motif; other site 1234380002065 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1234380002066 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1234380002067 Asp-box motif; other site 1234380002068 catalytic site [active] 1234380002069 putative sialic acid transporter; Provisional; Region: PRK03893 1234380002070 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 1234380002071 putative substrate translocation pore; other site 1234380002072 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 1234380002073 lipoyl synthase; Provisional; Region: PRK05481 1234380002074 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 1234380002075 FeS/SAM binding site; other site 1234380002076 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1234380002077 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 1234380002078 metal-binding site [ion binding] 1234380002079 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1234380002080 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 1234380002081 motif II; other site 1234380002082 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1234380002083 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1234380002084 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase; Region: SucB_Actino; TIGR02927 1234380002085 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 1234380002086 E3 interaction surface; other site 1234380002087 lipoyl attachment site [posttranslational modification]; other site 1234380002088 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 1234380002089 E3 interaction surface; other site 1234380002090 lipoyl attachment site [posttranslational modification]; other site 1234380002091 e3 binding domain; Region: E3_binding; pfam02817 1234380002092 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1234380002093 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 1234380002094 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1234380002095 interface (dimer of trimers) [polypeptide binding]; other site 1234380002096 Substrate-binding/catalytic site; other site 1234380002097 Zn-binding sites [ion binding]; other site 1234380002098 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 1234380002099 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1234380002100 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1234380002101 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1234380002102 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1234380002103 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1234380002104 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 1234380002105 D-pathway; other site 1234380002106 Putative ubiquinol binding site [chemical binding]; other site 1234380002107 Low-spin heme (heme b) binding site [chemical binding]; other site 1234380002108 Putative water exit pathway; other site 1234380002109 Binuclear center (heme o3/CuB) [ion binding]; other site 1234380002110 K-pathway; other site 1234380002111 Putative proton exit pathway; other site 1234380002112 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 1234380002113 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380002114 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380002115 Walker A/P-loop; other site 1234380002116 ATP binding site [chemical binding]; other site 1234380002117 Q-loop/lid; other site 1234380002118 ABC transporter signature motif; other site 1234380002119 Walker B; other site 1234380002120 D-loop; other site 1234380002121 H-loop/switch region; other site 1234380002122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1234380002123 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1234380002124 NAD(P) binding site [chemical binding]; other site 1234380002125 active site 1234380002126 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 1234380002127 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 1234380002128 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 1234380002129 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 1234380002130 phosphate binding site [ion binding]; other site 1234380002131 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 1234380002132 active site 1234380002133 DNA binding site [nucleotide binding] 1234380002134 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1234380002135 heme bH binding site [chemical binding]; other site 1234380002136 intrachain domain interface; other site 1234380002137 heme bL binding site [chemical binding]; other site 1234380002138 interchain domain interface [polypeptide binding]; other site 1234380002139 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 1234380002140 Qo binding site; other site 1234380002141 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1234380002142 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1234380002143 iron-sulfur cluster [ion binding]; other site 1234380002144 [2Fe-2S] cluster binding site [ion binding]; other site 1234380002145 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1234380002146 Cytochrome c; Region: Cytochrom_C; pfam00034 1234380002147 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1234380002148 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1234380002149 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 1234380002150 Subunit I/III interface [polypeptide binding]; other site 1234380002151 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; cl17736 1234380002152 active site 1234380002153 phosphorylation site [posttranslational modification] 1234380002154 intermolecular recognition site; other site 1234380002155 dimerization interface [polypeptide binding]; other site 1234380002156 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1234380002157 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 1234380002158 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1234380002159 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1234380002160 active site 1234380002161 Rhomboid family; Region: Rhomboid; cl11446 1234380002162 hypothetical protein; Validated; Region: PRK07883 1234380002163 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1234380002164 active site 1234380002165 catalytic site [active] 1234380002166 substrate binding site [chemical binding]; other site 1234380002167 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1234380002168 GIY-YIG motif/motif A; other site 1234380002169 active site 1234380002170 catalytic site [active] 1234380002171 putative DNA binding site [nucleotide binding]; other site 1234380002172 metal binding site [ion binding]; metal-binding site 1234380002173 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1234380002174 NlpC/P60 family; Region: NLPC_P60; pfam00877 1234380002175 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1234380002176 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1234380002177 nucleotide binding site [chemical binding]; other site 1234380002178 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1234380002179 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1234380002180 putative acyl-acceptor binding pocket; other site 1234380002181 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 1234380002182 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1234380002183 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1234380002184 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1234380002185 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1234380002186 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1234380002187 EamA-like transporter family; Region: EamA; pfam00892 1234380002188 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1234380002189 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1234380002190 active site 1234380002191 ATP binding site [chemical binding]; other site 1234380002192 substrate binding site [chemical binding]; other site 1234380002193 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1234380002194 substrate binding site [chemical binding]; other site 1234380002195 activation loop (A-loop); other site 1234380002196 activation loop (A-loop); other site 1234380002197 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 1234380002198 active site 1234380002199 barstar interaction site; other site 1234380002200 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 1234380002201 putative RNAase interaction site [polypeptide binding]; other site 1234380002202 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1234380002203 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1234380002204 substrate binding pocket [chemical binding]; other site 1234380002205 chain length determination region; other site 1234380002206 substrate-Mg2+ binding site; other site 1234380002207 catalytic residues [active] 1234380002208 aspartate-rich region 1; other site 1234380002209 active site lid residues [active] 1234380002210 aspartate-rich region 2; other site 1234380002211 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; cl00246 1234380002212 Part of AAA domain; Region: AAA_19; pfam13245 1234380002213 Family description; Region: UvrD_C_2; pfam13538 1234380002214 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1234380002215 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380002216 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380002217 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380002218 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1234380002219 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1234380002220 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 1234380002221 P-loop; other site 1234380002222 Magnesium ion binding site [ion binding]; other site 1234380002223 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 1234380002224 Magnesium ion binding site [ion binding]; other site 1234380002225 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1234380002226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1234380002227 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1234380002228 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1234380002229 arsenical-resistance protein; Region: acr3; TIGR00832 1234380002230 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1234380002231 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380002232 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1234380002233 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 1234380002234 dimerization interface [polypeptide binding]; other site 1234380002235 putative DNA binding site [nucleotide binding]; other site 1234380002236 putative Zn2+ binding site [ion binding]; other site 1234380002237 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 1234380002238 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 1234380002239 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 1234380002240 DTAP/Switch II; other site 1234380002241 Switch I; other site 1234380002242 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 1234380002243 DTAP/Switch II; other site 1234380002244 Switch I; other site 1234380002245 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1234380002246 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 1234380002247 Walker A motif; other site 1234380002248 ATP binding site [chemical binding]; other site 1234380002249 Walker B motif; other site 1234380002250 Cadmium resistance transporter; Region: Cad; pfam03596 1234380002251 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 1234380002252 dimerization interface [polypeptide binding]; other site 1234380002253 putative DNA binding site [nucleotide binding]; other site 1234380002254 putative Zn2+ binding site [ion binding]; other site 1234380002255 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1234380002256 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1234380002257 catalytic residues [active] 1234380002258 catalytic nucleophile [active] 1234380002259 Presynaptic Site I dimer interface [polypeptide binding]; other site 1234380002260 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1234380002261 Synaptic Flat tetramer interface [polypeptide binding]; other site 1234380002262 Synaptic Site I dimer interface [polypeptide binding]; other site 1234380002263 DNA binding site [nucleotide binding] 1234380002264 Helix-turn-helix domain; Region: HTH_38; pfam13936 1234380002265 DNA-binding interface [nucleotide binding]; DNA binding site 1234380002266 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1234380002267 FIC domain binding interface [polypeptide binding]; other site 1234380002268 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1234380002269 Fic/DOC family; Region: Fic; cl00960 1234380002270 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1234380002271 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1234380002272 catalytic residues [active] 1234380002273 catalytic nucleophile [active] 1234380002274 Presynaptic Site I dimer interface [polypeptide binding]; other site 1234380002275 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1234380002276 Synaptic Flat tetramer interface [polypeptide binding]; other site 1234380002277 Synaptic Site I dimer interface [polypeptide binding]; other site 1234380002278 DNA binding site [nucleotide binding] 1234380002279 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 1234380002280 DNA-binding interface [nucleotide binding]; DNA binding site 1234380002281 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380002282 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380002283 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380002284 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1234380002285 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1234380002286 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1234380002287 putative dimer interface [polypeptide binding]; other site 1234380002288 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1234380002289 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1234380002290 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1234380002291 DNA-binding site [nucleotide binding]; DNA binding site 1234380002292 FCD domain; Region: FCD; pfam07729 1234380002293 glycine dehydrogenase; Provisional; Region: PRK05367 1234380002294 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1234380002295 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1234380002296 catalytic residue [active] 1234380002297 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 1234380002298 tetramer interface [polypeptide binding]; other site 1234380002299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380002300 catalytic residue [active] 1234380002301 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 1234380002302 lipoyl attachment site [posttranslational modification]; other site 1234380002303 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1234380002304 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1234380002305 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1234380002306 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1234380002307 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1234380002308 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1234380002309 Protein of unknown function DUF58; Region: DUF58; pfam01882 1234380002310 MoxR-like ATPases [General function prediction only]; Region: COG0714 1234380002311 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 1234380002312 ATP binding site [chemical binding]; other site 1234380002313 Walker A motif; other site 1234380002314 Walker B motif; other site 1234380002315 arginine finger; other site 1234380002316 cell division protein MraZ; Reviewed; Region: PRK00326 1234380002317 MraZ protein; Region: MraZ; pfam02381 1234380002318 MraZ protein; Region: MraZ; pfam02381 1234380002319 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1234380002320 MraW methylase family; Region: Methyltransf_5; cl17771 1234380002321 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1234380002322 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1234380002323 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1234380002324 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1234380002325 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1234380002326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1234380002327 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1234380002328 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1234380002329 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1234380002330 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1234380002331 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1234380002332 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1234380002333 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 1234380002334 Mg++ binding site [ion binding]; other site 1234380002335 putative catalytic motif [active] 1234380002336 putative substrate binding site [chemical binding]; other site 1234380002337 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01438 1234380002338 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1234380002339 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1234380002340 cell division protein FtsW; Region: ftsW; TIGR02614 1234380002341 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1234380002342 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 1234380002343 active site 1234380002344 homodimer interface [polypeptide binding]; other site 1234380002345 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1234380002346 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1234380002347 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1234380002348 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1234380002349 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1234380002350 Cell division protein FtsQ; Region: FtsQ; pfam03799 1234380002351 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 1234380002352 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 1234380002353 nucleotide binding site [chemical binding]; other site 1234380002354 SulA interaction site; other site 1234380002355 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1234380002356 Protein of unknown function (DUF552); Region: DUF552; pfam04472 1234380002357 DivIVA protein; Region: DivIVA; pfam05103 1234380002358 DivIVA domain; Region: DivI1A_domain; TIGR03544 1234380002359 V-type ATP synthase subunit E; Provisional; Region: PRK02292 1234380002360 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1234380002361 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1234380002362 lipoprotein signal peptidase; Provisional; Region: PRK14787 1234380002363 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1234380002364 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 1234380002365 RNA binding surface [nucleotide binding]; other site 1234380002366 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1234380002367 active site 1234380002368 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 1234380002369 pyruvate kinase; Provisional; Region: PRK06247 1234380002370 active site 1234380002371 domain interfaces; other site 1234380002372 CrcB-like protein; Region: CRCB; pfam02537 1234380002373 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1234380002374 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1234380002375 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 1234380002376 active site 1234380002377 phosphorylation site [posttranslational modification] 1234380002378 intermolecular recognition site; other site 1234380002379 dimerization interface [polypeptide binding]; other site 1234380002380 ANTAR domain; Region: ANTAR; pfam03861 1234380002381 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 1234380002382 CoenzymeA binding site [chemical binding]; other site 1234380002383 subunit interaction site [polypeptide binding]; other site 1234380002384 PHB binding site; other site 1234380002385 DNA polymerase I; Provisional; Region: PRK05755 1234380002386 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1234380002387 active site 1234380002388 metal binding site 1 [ion binding]; metal-binding site 1234380002389 putative 5' ssDNA interaction site; other site 1234380002390 metal binding site 3; metal-binding site 1234380002391 metal binding site 2 [ion binding]; metal-binding site 1234380002392 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1234380002393 putative DNA binding site [nucleotide binding]; other site 1234380002394 putative metal binding site [ion binding]; other site 1234380002395 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1234380002396 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1234380002397 active site 1234380002398 DNA binding site [nucleotide binding] 1234380002399 catalytic site [active] 1234380002400 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1234380002401 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1234380002402 FAD binding domain; Region: FAD_binding_4; pfam01565 1234380002403 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1234380002404 Hint domain; Region: Hint_2; pfam13403 1234380002405 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 1234380002406 active site 1234380002407 putative catalytic site [active] 1234380002408 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 1234380002409 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1234380002410 RNA binding site [nucleotide binding]; other site 1234380002411 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 1234380002412 RNA binding site [nucleotide binding]; other site 1234380002413 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 1234380002414 RNA binding site [nucleotide binding]; other site 1234380002415 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 1234380002416 RNA binding site [nucleotide binding]; other site 1234380002417 domain interface; other site 1234380002418 Htaa; Region: HtaA; pfam04213 1234380002419 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1234380002420 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 1234380002421 intersubunit interface [polypeptide binding]; other site 1234380002422 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1234380002423 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 1234380002424 ABC-ATPase subunit interface; other site 1234380002425 dimer interface [polypeptide binding]; other site 1234380002426 putative PBP binding regions; other site 1234380002427 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1234380002428 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1234380002429 Walker A/P-loop; other site 1234380002430 ATP binding site [chemical binding]; other site 1234380002431 Q-loop/lid; other site 1234380002432 ABC transporter signature motif; other site 1234380002433 Walker B; other site 1234380002434 D-loop; other site 1234380002435 H-loop/switch region; other site 1234380002436 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380002437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002438 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380002439 Walker A/P-loop; other site 1234380002440 ATP binding site [chemical binding]; other site 1234380002441 Q-loop/lid; other site 1234380002442 ABC transporter signature motif; other site 1234380002443 Walker B; other site 1234380002444 D-loop; other site 1234380002445 H-loop/switch region; other site 1234380002446 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1234380002447 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1234380002448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002449 Walker A/P-loop; other site 1234380002450 ATP binding site [chemical binding]; other site 1234380002451 Q-loop/lid; other site 1234380002452 ABC transporter signature motif; other site 1234380002453 Walker B; other site 1234380002454 D-loop; other site 1234380002455 H-loop/switch region; other site 1234380002456 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 1234380002457 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1234380002458 CoA-binding site [chemical binding]; other site 1234380002459 ATP-binding [chemical binding]; other site 1234380002460 Htaa; Region: HtaA; pfam04213 1234380002461 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 1234380002462 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1234380002463 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 1234380002464 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 1234380002465 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 1234380002466 metal ion-dependent adhesion site (MIDAS); other site 1234380002467 potential frameshift: common BLAST hit: gi|365973682|ref|YP_004955241.1| CobN/magnesium chelatase domain protein 1234380002468 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1234380002469 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1234380002470 Walker A/P-loop; other site 1234380002471 ATP binding site [chemical binding]; other site 1234380002472 Q-loop/lid; other site 1234380002473 ABC transporter signature motif; other site 1234380002474 Walker B; other site 1234380002475 D-loop; other site 1234380002476 H-loop/switch region; other site 1234380002477 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1234380002478 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 1234380002479 ABC-ATPase subunit interface; other site 1234380002480 dimer interface [polypeptide binding]; other site 1234380002481 putative PBP binding regions; other site 1234380002482 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1234380002483 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 1234380002484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002485 ABC transporter signature motif; other site 1234380002486 Walker B; other site 1234380002487 D-loop; other site 1234380002488 H-loop/switch region; other site 1234380002489 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002490 Walker A/P-loop; other site 1234380002491 ATP binding site [chemical binding]; other site 1234380002492 Q-loop/lid; other site 1234380002493 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 1234380002494 excinuclease ABC subunit B; Provisional; Region: PRK05298 1234380002495 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 1234380002496 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 1234380002497 nucleotide binding region [chemical binding]; other site 1234380002498 ATP-binding site [chemical binding]; other site 1234380002499 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1234380002500 UvrB/uvrC motif; Region: UVR; pfam02151 1234380002501 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1234380002502 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1234380002503 mycothiol-dependent maleylpyruvate isomerase; Reviewed; Region: PRK09583 1234380002504 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1234380002505 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1234380002506 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1234380002507 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1234380002508 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1234380002509 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1234380002510 iron-sulfur cluster [ion binding]; other site 1234380002511 [2Fe-2S] cluster binding site [ion binding]; other site 1234380002512 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 1234380002513 catalytic core [active] 1234380002514 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1234380002515 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1234380002516 GIY-YIG motif/motif A; other site 1234380002517 active site 1234380002518 catalytic site [active] 1234380002519 putative DNA binding site [nucleotide binding]; other site 1234380002520 metal binding site [ion binding]; metal-binding site 1234380002521 UvrB/uvrC motif; Region: UVR; pfam02151 1234380002522 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1234380002523 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1234380002524 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1234380002525 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1234380002526 phosphate binding site [ion binding]; other site 1234380002527 putative substrate binding pocket [chemical binding]; other site 1234380002528 dimer interface [polypeptide binding]; other site 1234380002529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1234380002530 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1234380002531 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1234380002532 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1234380002533 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1234380002534 Phosphoglycerate kinase; Region: PGK; pfam00162 1234380002535 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 1234380002536 substrate binding site [chemical binding]; other site 1234380002537 hinge regions; other site 1234380002538 ADP binding site [chemical binding]; other site 1234380002539 catalytic site [active] 1234380002540 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 1234380002541 triosephosphate isomerase; Provisional; Region: PRK14567 1234380002542 substrate binding site [chemical binding]; other site 1234380002543 dimer interface [polypeptide binding]; other site 1234380002544 catalytic triad [active] 1234380002545 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 1234380002546 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1234380002547 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1234380002548 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 1234380002549 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 1234380002550 active site 1234380002551 multimer interface [polypeptide binding]; other site 1234380002552 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 1234380002553 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1234380002554 B12 binding site [chemical binding]; other site 1234380002555 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 1234380002556 FeS/SAM binding site; other site 1234380002557 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 1234380002558 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 1234380002559 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1234380002560 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 1234380002561 homodimer interface [polypeptide binding]; other site 1234380002562 oligonucleotide binding site [chemical binding]; other site 1234380002563 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1234380002564 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1234380002565 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380002566 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 1234380002567 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1234380002568 putative substrate translocation pore; other site 1234380002569 GTPase CgtA; Reviewed; Region: obgE; PRK12296 1234380002570 GTP1/OBG; Region: GTP1_OBG; pfam01018 1234380002571 Obg GTPase; Region: Obg; cd01898 1234380002572 G1 box; other site 1234380002573 GTP/Mg2+ binding site [chemical binding]; other site 1234380002574 Switch I region; other site 1234380002575 G2 box; other site 1234380002576 G3 box; other site 1234380002577 Switch II region; other site 1234380002578 G4 box; other site 1234380002579 G5 box; other site 1234380002580 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1234380002581 gamma-glutamyl kinase; Provisional; Region: PRK05429 1234380002582 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 1234380002583 nucleotide binding site [chemical binding]; other site 1234380002584 homotetrameric interface [polypeptide binding]; other site 1234380002585 putative phosphate binding site [ion binding]; other site 1234380002586 putative allosteric binding site; other site 1234380002587 PUA domain; Region: PUA; pfam01472 1234380002588 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1234380002589 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1234380002590 putative catalytic cysteine [active] 1234380002591 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1234380002592 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1234380002593 active site 1234380002594 (T/H)XGH motif; other site 1234380002595 Oligomerisation domain; Region: Oligomerisation; pfam02410 1234380002596 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 1234380002597 catalytic core [active] 1234380002598 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 1234380002599 substrate binding site [chemical binding]; other site 1234380002600 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002601 H-loop/switch region; other site 1234380002602 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1234380002603 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1234380002604 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1234380002605 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380002606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1234380002607 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1234380002608 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380002609 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380002610 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380002611 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1234380002612 FtsX-like permease family; Region: FtsX; pfam02687 1234380002613 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380002614 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380002615 Walker A/P-loop; other site 1234380002616 ATP binding site [chemical binding]; other site 1234380002617 Q-loop/lid; other site 1234380002618 ABC transporter signature motif; other site 1234380002619 Walker B; other site 1234380002620 D-loop; other site 1234380002621 H-loop/switch region; other site 1234380002622 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1234380002623 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 1234380002624 ATP binding site [chemical binding]; other site 1234380002625 Mg2+ binding site [ion binding]; other site 1234380002626 G-X-G motif; other site 1234380002627 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1234380002628 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 1234380002629 active site 1234380002630 phosphorylation site [posttranslational modification] 1234380002631 intermolecular recognition site; other site 1234380002632 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 1234380002633 DNA binding residues [nucleotide binding] 1234380002634 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 1234380002635 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 1234380002636 aspartate aminotransferase; Provisional; Region: PRK05764 1234380002637 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1234380002638 catalytic residue [active] 1234380002639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1234380002640 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1234380002641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002642 Walker A/P-loop; other site 1234380002643 ATP binding site [chemical binding]; other site 1234380002644 Q-loop/lid; other site 1234380002645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002646 ABC transporter signature motif; other site 1234380002647 Walker B; other site 1234380002648 D-loop; other site 1234380002649 H-loop/switch region; other site 1234380002650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002651 Walker A/P-loop; other site 1234380002652 ATP binding site [chemical binding]; other site 1234380002653 Q-loop/lid; other site 1234380002654 ABC transporter signature motif; other site 1234380002655 Walker B; other site 1234380002656 D-loop; other site 1234380002657 H-loop/switch region; other site 1234380002658 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1234380002659 MarR family; Region: MarR_2; pfam12802 1234380002660 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1234380002661 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1234380002662 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 1234380002663 active site 1234380002664 substrate binding pocket [chemical binding]; other site 1234380002665 homodimer interaction site [polypeptide binding]; other site 1234380002666 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 1234380002667 active site 1234380002668 dimer interface [polypeptide binding]; other site 1234380002669 magnesium binding site [ion binding]; other site 1234380002670 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 1234380002671 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 1234380002672 AP (apurinic/apyrimidinic) site pocket; other site 1234380002673 DNA interaction; other site 1234380002674 Metal-binding active site; metal-binding site 1234380002675 L-ribulose-5-phosphate 4-epimerase; Validated; Region: PRK06557 1234380002676 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1234380002677 intersubunit interface [polypeptide binding]; other site 1234380002678 active site 1234380002679 Zn2+ binding site [ion binding]; other site 1234380002680 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1234380002681 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 1234380002682 substrate binding site [chemical binding]; other site 1234380002683 ATP binding site [chemical binding]; other site 1234380002684 benzoate transport; Region: 2A0115; TIGR00895 1234380002685 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 1234380002686 putative substrate translocation pore; other site 1234380002687 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 1234380002688 substrate binding site [chemical binding]; other site 1234380002689 multimerization interface [polypeptide binding]; other site 1234380002690 ATP binding site [chemical binding]; other site 1234380002691 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 1234380002692 thiamine phosphate binding site [chemical binding]; other site 1234380002693 active site 1234380002694 pyrophosphate binding site [ion binding]; other site 1234380002695 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 1234380002696 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1234380002697 dimer interface [polypeptide binding]; other site 1234380002698 NAD binding site [chemical binding]; other site 1234380002699 substrate binding site [chemical binding]; other site 1234380002700 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1234380002701 malate dehydrogenase; Provisional; Region: PRK13529 1234380002702 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1234380002703 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1234380002704 NAD(P) binding site [chemical binding]; other site 1234380002705 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 1234380002706 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1234380002707 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1234380002708 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1234380002709 HIGH motif; other site 1234380002710 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1234380002711 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1234380002712 active site 1234380002713 KMSKS motif; other site 1234380002714 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1234380002715 tRNA binding surface [nucleotide binding]; other site 1234380002716 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1234380002717 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1234380002718 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1234380002719 Competence protein; Region: Competence; pfam03772 1234380002720 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1234380002721 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1234380002722 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1234380002723 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 1234380002724 ATP binding site [chemical binding]; other site 1234380002725 putative Mg++ binding site [ion binding]; other site 1234380002726 hypothetical protein; Reviewed; Region: PRK07914 1234380002727 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1234380002728 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1234380002729 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 1234380002730 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1234380002731 active site 1234380002732 catalytic site [active] 1234380002733 GTP-binding protein LepA; Provisional; Region: PRK05433 1234380002734 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1234380002735 G1 box; other site 1234380002736 putative GEF interaction site [polypeptide binding]; other site 1234380002737 GTP/Mg2+ binding site [chemical binding]; other site 1234380002738 Switch I region; other site 1234380002739 G2 box; other site 1234380002740 G3 box; other site 1234380002741 Switch II region; other site 1234380002742 G4 box; other site 1234380002743 G5 box; other site 1234380002744 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 1234380002745 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 1234380002746 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1234380002747 O-succinylbenzoate synthase; Provisional; Region: PRK02901 1234380002748 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 1234380002749 active site 1234380002750 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 1234380002751 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 1234380002752 dimer interface [polypeptide binding]; other site 1234380002753 tetramer interface [polypeptide binding]; other site 1234380002754 PYR/PP interface [polypeptide binding]; other site 1234380002755 TPP binding site [chemical binding]; other site 1234380002756 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 1234380002757 TPP-binding site [chemical binding]; other site 1234380002758 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 1234380002759 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1234380002760 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1234380002761 acyl-activating enzyme (AAE) consensus motif; other site 1234380002762 AMP binding site [chemical binding]; other site 1234380002763 active site 1234380002764 CoA binding site [chemical binding]; other site 1234380002765 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 1234380002766 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1234380002767 substrate binding site [chemical binding]; other site 1234380002768 oxyanion hole (OAH) forming residues; other site 1234380002769 trimer interface [polypeptide binding]; other site 1234380002770 Rhomboid family; Region: Rhomboid; pfam01694 1234380002771 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1234380002772 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1234380002773 acyl-activating enzyme (AAE) consensus motif; other site 1234380002774 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1234380002775 AMP binding site [chemical binding]; other site 1234380002776 active site 1234380002777 CoA binding site [chemical binding]; other site 1234380002778 coproporphyrinogen III oxidase; Validated; Region: PRK05628 1234380002779 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 1234380002780 FeS/SAM binding site; other site 1234380002781 HemN C-terminal domain; Region: HemN_C; pfam06969 1234380002782 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 1234380002783 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1234380002784 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1234380002785 active site 1234380002786 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1234380002787 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1234380002788 chaperone protein DnaJ; Provisional; Region: PRK14278 1234380002789 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 1234380002790 HSP70 interaction site [polypeptide binding]; other site 1234380002791 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1234380002792 Zn binding sites [ion binding]; other site 1234380002793 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1234380002794 dimer interface [polypeptide binding]; other site 1234380002795 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 1234380002796 RNA methyltransferase, RsmE family; Region: TIGR00046 1234380002797 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1234380002798 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 1234380002799 putative NAD(P) binding site [chemical binding]; other site 1234380002800 catalytic Zn binding site [ion binding]; other site 1234380002801 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1234380002802 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1234380002803 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 1234380002804 active site 1234380002805 P-loop; other site 1234380002806 phosphorylation site [posttranslational modification] 1234380002807 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 1234380002808 active site 1234380002809 phosphorylation site [posttranslational modification] 1234380002810 Predicted membrane protein [Function unknown]; Region: COG2259 1234380002811 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1234380002812 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 1234380002813 ATP binding site [chemical binding]; other site 1234380002814 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1234380002815 putative Mg++ binding site [ion binding]; other site 1234380002816 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 1234380002817 nucleotide binding region [chemical binding]; other site 1234380002818 ATP-binding site [chemical binding]; other site 1234380002819 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 1234380002820 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1234380002821 EamA-like transporter family; Region: EamA; pfam00892 1234380002822 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1234380002823 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1234380002824 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1234380002825 Histidine kinase; Region: HisKA_3; pfam07730 1234380002826 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1234380002827 potential frameshift: common BLAST hit: gi|365964867|ref|YP_004946432.1| two-component response regulator 1234380002828 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1234380002829 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380002830 Walker A/P-loop; other site 1234380002831 ATP binding site [chemical binding]; other site 1234380002832 Q-loop/lid; other site 1234380002833 ABC transporter signature motif; other site 1234380002834 Walker B; other site 1234380002835 D-loop; other site 1234380002836 H-loop/switch region; other site 1234380002837 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1234380002838 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1234380002839 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1234380002840 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1234380002841 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1234380002842 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1234380002843 PhoH-like protein; Region: PhoH; pfam02562 1234380002844 metal-binding heat shock protein; Provisional; Region: PRK00016 1234380002845 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1234380002846 Domain of unknown function DUF21; Region: DUF21; pfam01595 1234380002847 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 1234380002848 Transporter associated domain; Region: CorC_HlyC; smart01091 1234380002849 GTPase Era; Reviewed; Region: era; PRK00089 1234380002850 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1234380002851 G1 box; other site 1234380002852 GTP/Mg2+ binding site [chemical binding]; other site 1234380002853 Switch I region; other site 1234380002854 G2 box; other site 1234380002855 Switch II region; other site 1234380002856 G3 box; other site 1234380002857 G4 box; other site 1234380002858 G5 box; other site 1234380002859 KH domain; Region: KH_2; pfam07650 1234380002860 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1234380002861 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 1234380002862 active site 1234380002863 potential frameshift: common BLAST hit: gi|386023881|ref|YP_005942184.1| 2-isopropylmalate synthase 1234380002864 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 1234380002865 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1234380002866 catalytic residue [active] 1234380002867 putative FPP diphosphate binding site; other site 1234380002868 putative FPP binding hydrophobic cleft; other site 1234380002869 dimer interface [polypeptide binding]; other site 1234380002870 putative IPP diphosphate binding site; other site 1234380002871 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 1234380002872 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1234380002873 Recombination protein O N terminal; Region: RecO_N; pfam11967 1234380002874 Recombination protein O C terminal; Region: RecO_C; pfam02565 1234380002875 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1234380002876 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1234380002877 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 1234380002878 active site 1234380002879 phosphorylation site [posttranslational modification] 1234380002880 intermolecular recognition site; other site 1234380002881 dimerization interface [polypeptide binding]; other site 1234380002882 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 1234380002883 DNA binding residues [nucleotide binding] 1234380002884 dimerization interface [polypeptide binding]; other site 1234380002885 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1234380002886 metal binding site 2 [ion binding]; metal-binding site 1234380002887 putative DNA binding helix; other site 1234380002888 metal binding site 1 [ion binding]; metal-binding site 1234380002889 dimer interface [polypeptide binding]; other site 1234380002890 structural Zn2+ binding site [ion binding]; other site 1234380002891 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1234380002892 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 1234380002893 motif 1; other site 1234380002894 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1234380002895 active site 1234380002896 motif 2; other site 1234380002897 motif 3; other site 1234380002898 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 1234380002899 anticodon binding site; other site 1234380002900 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1234380002901 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 1234380002902 proximal heme binding site [chemical binding]; other site 1234380002903 distal heme binding site [chemical binding]; other site 1234380002904 putative dimer interface [polypeptide binding]; other site 1234380002905 putative Iron-sulfur protein interface [polypeptide binding]; other site 1234380002906 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 1234380002907 L-aspartate oxidase; Provisional; Region: PRK06175 1234380002908 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1234380002909 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1234380002910 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1234380002911 4Fe-4S binding domain; Region: Fer4; pfam00037 1234380002912 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1234380002913 putative FMN binding site [chemical binding]; other site 1234380002914 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1234380002915 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1234380002916 putative dimer interface [polypeptide binding]; other site 1234380002917 active site pocket [active] 1234380002918 putative cataytic base [active] 1234380002919 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1234380002920 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 1234380002921 FMN binding site [chemical binding]; other site 1234380002922 active site 1234380002923 catalytic residues [active] 1234380002924 substrate binding site [chemical binding]; other site 1234380002925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1234380002926 Zn2+ binding site [ion binding]; other site 1234380002927 Mg2+ binding site [ion binding]; other site 1234380002928 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1234380002929 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 1234380002930 DNA primase; Validated; Region: dnaG; PRK05667 1234380002931 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1234380002932 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1234380002933 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 1234380002934 active site 1234380002935 metal binding site [ion binding]; metal-binding site 1234380002936 interdomain interaction site; other site 1234380002937 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1234380002938 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 1234380002939 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 1234380002940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1234380002941 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 1234380002942 DNA binding residues [nucleotide binding] 1234380002943 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1234380002944 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1234380002945 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1234380002946 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1234380002947 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 1234380002948 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1234380002949 active site 1234380002950 homotetramer interface [polypeptide binding]; other site 1234380002951 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1234380002952 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1234380002953 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1234380002954 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 1234380002955 dimer interface [polypeptide binding]; other site 1234380002956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380002957 catalytic residue [active] 1234380002958 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 1234380002959 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1234380002960 DNA-binding site [nucleotide binding]; DNA binding site 1234380002961 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 1234380002962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380002963 homodimer interface [polypeptide binding]; other site 1234380002964 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1234380002965 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1234380002966 active site 1234380002967 multimer interface [polypeptide binding]; other site 1234380002968 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1234380002969 predicted active site [active] 1234380002970 catalytic triad [active] 1234380002971 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 1234380002972 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 1234380002973 inhibitor-cofactor binding pocket; inhibition site 1234380002974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380002975 catalytic residue [active] 1234380002976 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1234380002977 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1234380002978 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 1234380002979 potential protein location (hypothetical protein PAC1_05115 [Propionibacterium acnes C1]) that overlaps RNA (tRNA-M) 1234380002980 potential frameshift: common BLAST hit: gi|365973845|ref|YP_004955404.1| hydrolase 1234380002981 MoxR-like ATPases [General function prediction only]; Region: COG0714 1234380002982 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 1234380002983 Walker A motif; other site 1234380002984 ATP binding site [chemical binding]; other site 1234380002985 Walker B motif; other site 1234380002986 arginine finger; other site 1234380002987 Protein of unknown function DUF58; Region: DUF58; pfam01882 1234380002988 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1234380002989 hypothetical protein; Provisional; Region: PRK13685 1234380002990 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1234380002991 metal ion-dependent adhesion site (MIDAS); other site 1234380002992 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 1234380002993 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1234380002994 metal ion-dependent adhesion site (MIDAS); other site 1234380002995 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1234380002996 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1234380002997 catalytic residue [active] 1234380002998 Protein of unknown function (DUF3145); Region: DUF3145; pfam11343 1234380002999 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 1234380003000 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1234380003001 dimer interface [polypeptide binding]; other site 1234380003002 active site 1234380003003 acyl carrier protein; Provisional; Region: acpP; PRK00982 1234380003004 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1234380003005 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 1234380003006 dimer interface [polypeptide binding]; other site 1234380003007 active site 1234380003008 CoA binding pocket [chemical binding]; other site 1234380003009 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1234380003010 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1234380003011 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1234380003012 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1234380003013 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1234380003014 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1234380003015 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 1234380003016 putative substrate translocation pore; other site 1234380003017 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 1234380003018 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1234380003019 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1234380003020 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 1234380003021 dimer interface [polypeptide binding]; other site 1234380003022 TPP-binding site [chemical binding]; other site 1234380003023 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 1234380003024 active site 1234380003025 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 1234380003026 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 1234380003027 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 1234380003028 Isochorismatase family; Region: Isochorismatase; pfam00857 1234380003029 catalytic triad [active] 1234380003030 metal binding site [ion binding]; metal-binding site 1234380003031 conserved cis-peptide bond; other site 1234380003032 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1234380003033 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 1234380003034 active site 1234380003035 catalytic tetrad [active] 1234380003036 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1234380003037 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380003038 active site 1234380003039 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1234380003040 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1234380003041 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1234380003042 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 1234380003043 dihydroorotase; Validated; Region: pyrC; PRK09357 1234380003044 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1234380003045 active site 1234380003046 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1234380003047 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1234380003048 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1234380003049 catalytic site [active] 1234380003050 subunit interface [polypeptide binding]; other site 1234380003051 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1234380003052 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1234380003053 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1234380003054 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1234380003055 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1234380003056 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1234380003057 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1234380003058 substrate binding site [chemical binding]; other site 1234380003059 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1234380003060 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1234380003061 FAD binding pocket [chemical binding]; other site 1234380003062 FAD binding motif [chemical binding]; other site 1234380003063 phosphate binding motif [ion binding]; other site 1234380003064 beta-alpha-beta structure motif; other site 1234380003065 NAD binding pocket [chemical binding]; other site 1234380003066 Iron coordination center [ion binding]; other site 1234380003067 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1234380003068 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1234380003069 heterodimer interface [polypeptide binding]; other site 1234380003070 active site 1234380003071 FMN binding site [chemical binding]; other site 1234380003072 homodimer interface [polypeptide binding]; other site 1234380003073 substrate binding site [chemical binding]; other site 1234380003074 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 1234380003075 active site 1234380003076 dimer interface [polypeptide binding]; other site 1234380003077 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380003078 active site 1234380003079 Fructosamine kinase; Region: Fructosamin_kin; cl17579 1234380003080 Phosphotransferase enzyme family; Region: APH; pfam01636 1234380003081 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1234380003082 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1234380003083 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1234380003084 Competence-damaged protein; Region: CinA; pfam02464 1234380003085 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 1234380003086 non-specific DNA binding site [nucleotide binding]; other site 1234380003087 salt bridge; other site 1234380003088 sequence-specific DNA binding site [nucleotide binding]; other site 1234380003089 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1234380003090 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1234380003091 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1234380003092 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 1234380003093 recombinase A; Provisional; Region: recA; PRK09354 1234380003094 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 1234380003095 hexamer interface [polypeptide binding]; other site 1234380003096 Walker A motif; other site 1234380003097 ATP binding site [chemical binding]; other site 1234380003098 Walker B motif; other site 1234380003099 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1234380003100 hypothetical protein; Provisional; Region: PRK12705 1234380003101 KH domain; Region: KH_1; pfam00013 1234380003102 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1234380003103 Zn2+ binding site [ion binding]; other site 1234380003104 Mg2+ binding site [ion binding]; other site 1234380003105 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 1234380003106 active site 1234380003107 catalytic residues [active] 1234380003108 Predicted membrane protein [Function unknown]; Region: COG1288 1234380003109 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1234380003110 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 1234380003111 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1234380003112 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 1234380003113 FeS/SAM binding site; other site 1234380003114 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 1234380003115 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1234380003116 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1234380003117 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1234380003118 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1234380003119 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1234380003120 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1234380003121 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1234380003122 HflX GTPase family; Region: HflX; cd01878 1234380003123 G1 box; other site 1234380003124 GTP/Mg2+ binding site [chemical binding]; other site 1234380003125 Switch I region; other site 1234380003126 G2 box; other site 1234380003127 G3 box; other site 1234380003128 Switch II region; other site 1234380003129 G4 box; other site 1234380003130 G5 box; other site 1234380003131 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1234380003132 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 1234380003133 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 1234380003134 putative Mg++ binding site [ion binding]; other site 1234380003135 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1234380003136 LexA repressor; Validated; Region: PRK00215 1234380003137 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1234380003138 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 1234380003139 Catalytic site [active] 1234380003140 ATP cone domain; Region: ATP-cone; pfam03477 1234380003141 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 1234380003142 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1234380003143 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1234380003144 active site 1234380003145 dimer interface [polypeptide binding]; other site 1234380003146 effector binding site; other site 1234380003147 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1234380003148 TSCPD domain; Region: TSCPD; pfam12637 1234380003149 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1234380003150 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 1234380003151 Ligand Binding Site [chemical binding]; other site 1234380003152 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 1234380003153 Ligand Binding Site [chemical binding]; other site 1234380003154 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1234380003155 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 1234380003156 ATP binding site [chemical binding]; other site 1234380003157 putative Mg++ binding site [ion binding]; other site 1234380003158 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 1234380003159 nucleotide binding region [chemical binding]; other site 1234380003160 ATP-binding site [chemical binding]; other site 1234380003161 Helicase associated domain (HA2); Region: HA2; pfam04408 1234380003162 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1234380003163 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1234380003164 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1234380003165 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 1234380003166 active site 1234380003167 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 1234380003168 catalytic triad [active] 1234380003169 dimer interface [polypeptide binding]; other site 1234380003170 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 1234380003171 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1234380003172 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1234380003173 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1234380003174 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1234380003175 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 1234380003176 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1234380003177 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1234380003178 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1234380003179 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 1234380003180 DNA binding residues [nucleotide binding] 1234380003181 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1234380003182 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1234380003183 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1234380003184 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1234380003185 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1234380003186 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380003187 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 1234380003188 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1234380003189 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1234380003190 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1234380003191 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1234380003192 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1234380003193 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1234380003194 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1234380003195 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1234380003196 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 1234380003197 Mg2+ binding site [ion binding]; other site 1234380003198 G-X-G motif; other site 1234380003199 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 1234380003200 anchoring element; other site 1234380003201 dimer interface [polypeptide binding]; other site 1234380003202 ATP binding site [chemical binding]; other site 1234380003203 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 1234380003204 active site 1234380003205 metal binding site [ion binding]; metal-binding site 1234380003206 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1234380003207 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1234380003208 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1234380003209 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1234380003210 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 1234380003211 putative substrate translocation pore; other site 1234380003212 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1234380003213 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 1234380003214 CAP-like domain; other site 1234380003215 active site 1234380003216 primary dimer interface [polypeptide binding]; other site 1234380003217 Uncharacterized conserved protein [Function unknown]; Region: COG4850 1234380003218 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 1234380003219 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1234380003220 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 1234380003221 thymidine kinase; Provisional; Region: PRK04296 1234380003222 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 1234380003223 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 1234380003224 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 1234380003225 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 1234380003226 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1234380003227 trimer interface [polypeptide binding]; other site 1234380003228 active site 1234380003229 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 1234380003230 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 1234380003231 ssDNA binding site; other site 1234380003232 generic binding surface II; other site 1234380003233 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1234380003234 TrkA-N domain; Region: TrkA_N; pfam02254 1234380003235 TrkA-C domain; Region: TrkA_C; pfam02080 1234380003236 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1234380003237 TrkA-N domain; Region: TrkA_N; pfam02254 1234380003238 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1234380003239 TRAM domain; Region: TRAM; cl01282 1234380003240 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1234380003241 aconitate hydratase; Validated; Region: PRK09277 1234380003242 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1234380003243 substrate binding site [chemical binding]; other site 1234380003244 ligand binding site [chemical binding]; other site 1234380003245 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 1234380003246 substrate binding site [chemical binding]; other site 1234380003247 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1234380003248 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1234380003249 TPP-binding site; other site 1234380003250 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 1234380003251 PYR/PP interface [polypeptide binding]; other site 1234380003252 dimer interface [polypeptide binding]; other site 1234380003253 TPP binding site [chemical binding]; other site 1234380003254 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1234380003255 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1234380003256 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1234380003257 catalytic site [active] 1234380003258 putative active site [active] 1234380003259 putative substrate binding site [chemical binding]; other site 1234380003260 HRDC domain; Region: HRDC; pfam00570 1234380003261 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 1234380003262 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1234380003263 SelR domain; Region: SelR; pfam01641 1234380003264 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1234380003265 active site 1234380003266 YheO-like PAS domain; Region: PAS_6; pfam08348 1234380003267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1234380003268 HTH domain; Region: HTH_22; pfam13309 1234380003269 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 1234380003270 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1234380003271 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1234380003272 catalytic residue [active] 1234380003273 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1234380003274 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1234380003275 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1234380003276 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1234380003277 putative NAD(P) binding site [chemical binding]; other site 1234380003278 putative substrate binding site [chemical binding]; other site 1234380003279 catalytic Zn binding site [ion binding]; other site 1234380003280 structural Zn binding site [ion binding]; other site 1234380003281 dimer interface [polypeptide binding]; other site 1234380003282 LrgB-like family; Region: LrgB; cl00596 1234380003283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1234380003284 Histidine kinase; Region: HisKA_3; pfam07730 1234380003285 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 1234380003286 ATP binding site [chemical binding]; other site 1234380003287 Mg2+ binding site [ion binding]; other site 1234380003288 G-X-G motif; other site 1234380003289 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1234380003290 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 1234380003291 active site 1234380003292 phosphorylation site [posttranslational modification] 1234380003293 intermolecular recognition site; other site 1234380003294 dimerization interface [polypeptide binding]; other site 1234380003295 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 1234380003296 DNA binding residues [nucleotide binding] 1234380003297 dimerization interface [polypeptide binding]; other site 1234380003298 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 1234380003299 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1234380003300 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1234380003301 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 1234380003302 active site 1234380003303 dimer interface [polypeptide binding]; other site 1234380003304 motif 1; other site 1234380003305 motif 2; other site 1234380003306 motif 3; other site 1234380003307 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 1234380003308 anticodon binding site; other site 1234380003309 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 1234380003310 nucleotide binding site/active site [active] 1234380003311 HIT family signature motif; other site 1234380003312 catalytic residue [active] 1234380003313 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1234380003314 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1234380003315 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1234380003316 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 1234380003317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 1234380003318 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1234380003319 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 1234380003320 lipoyl attachment site [posttranslational modification]; other site 1234380003321 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1234380003322 Double zinc ribbon; Region: DZR; pfam12773 1234380003323 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1234380003324 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1234380003325 phosphopeptide binding site; other site 1234380003326 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1234380003327 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1234380003328 DNA binding residues [nucleotide binding] 1234380003329 Bifunctional nuclease; Region: DNase-RNase; pfam02577 1234380003330 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1234380003331 DNA binding residues [nucleotide binding] 1234380003332 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1234380003333 putative dimer interface [polypeptide binding]; other site 1234380003334 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1234380003335 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1234380003336 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 1234380003337 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 1234380003338 active site 1234380003339 ADP/pyrophosphate binding site [chemical binding]; other site 1234380003340 fructose-1,6-bisphosphate binding site; other site 1234380003341 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1234380003342 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1234380003343 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1234380003344 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380003345 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380003346 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380003347 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1234380003348 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1234380003349 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1234380003350 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1234380003351 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1234380003352 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1234380003353 PAC2 family; Region: PAC2; pfam09754 1234380003354 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 1234380003355 active site 1234380003356 acyl-CoA esterase; Provisional; Region: PRK10673 1234380003357 hypothetical protein; Provisional; Region: PRK03298 1234380003358 DivIVA protein; Region: DivIVA; pfam05103 1234380003359 V-type ATP synthase subunit E; Provisional; Region: PRK01558 1234380003360 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1234380003361 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1234380003362 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1234380003363 dimer interface [polypeptide binding]; other site 1234380003364 substrate binding site [chemical binding]; other site 1234380003365 metal binding site [ion binding]; metal-binding site 1234380003366 phosphoglucomutase; Validated; Region: PRK07564 1234380003367 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 1234380003368 active site 1234380003369 substrate binding site [chemical binding]; other site 1234380003370 metal binding site [ion binding]; metal-binding site 1234380003371 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1234380003372 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 1234380003373 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1234380003374 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 1234380003375 motif II; other site 1234380003376 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1234380003377 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1234380003378 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1234380003379 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1234380003380 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 1234380003381 active site turn [active] 1234380003382 phosphorylation site [posttranslational modification] 1234380003383 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1234380003384 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1234380003385 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1234380003386 HPr interaction site; other site 1234380003387 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1234380003388 active site 1234380003389 phosphorylation site [posttranslational modification] 1234380003390 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1234380003391 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1234380003392 nudix motif; other site 1234380003393 glycogen branching enzyme; Provisional; Region: PRK12313 1234380003394 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1234380003395 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1234380003396 active site 1234380003397 catalytic site [active] 1234380003398 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1234380003399 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1234380003400 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1234380003401 trehalose synthase; Region: treS_nterm; TIGR02456 1234380003402 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1234380003403 active site 1234380003404 catalytic site [active] 1234380003405 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1234380003406 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1234380003407 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1234380003408 active site 1234380003409 homodimer interface [polypeptide binding]; other site 1234380003410 catalytic site [active] 1234380003411 acceptor binding site [chemical binding]; other site 1234380003412 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1234380003413 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 1234380003414 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1234380003415 active site 1234380003416 catalytic site [active] 1234380003417 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1234380003418 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1234380003419 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1234380003420 catalytic residue [active] 1234380003421 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1234380003422 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 1234380003423 Ligand Binding Site [chemical binding]; other site 1234380003424 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 1234380003425 ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains; Region: ACT_MalLac-Enz; cd04887 1234380003426 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1234380003427 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1234380003428 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1234380003429 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1234380003430 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1234380003431 GatB domain; Region: GatB_Yqey; smart00845 1234380003432 TIGR03085 family protein; Region: TIGR03085 1234380003433 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1234380003434 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1234380003435 anthranilate synthase component I; Provisional; Region: PRK13571 1234380003436 anthranilate synthase component I; Provisional; Region: PRK13571 1234380003437 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; cl17850 1234380003438 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 1234380003439 active site 1234380003440 ribulose/triose binding site [chemical binding]; other site 1234380003441 phosphate binding site [ion binding]; other site 1234380003442 substrate (anthranilate) binding pocket [chemical binding]; other site 1234380003443 product (indole) binding pocket [chemical binding]; other site 1234380003444 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1234380003445 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 1234380003446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380003447 catalytic residue [active] 1234380003448 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 1234380003449 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1234380003450 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1234380003451 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 1234380003452 active site 1234380003453 dimer interface [polypeptide binding]; other site 1234380003454 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1234380003455 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 1234380003456 active site 1234380003457 FMN binding site [chemical binding]; other site 1234380003458 substrate binding site [chemical binding]; other site 1234380003459 3Fe-4S cluster binding site [ion binding]; other site 1234380003460 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 1234380003461 domain interface; other site 1234380003462 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1234380003463 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1234380003464 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1234380003465 Beta-lactamase; Region: Beta-lactamase; cl17358 1234380003466 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1234380003467 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1234380003468 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 1234380003469 putative active site [active] 1234380003470 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1234380003471 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 1234380003472 putative active site [active] 1234380003473 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 1234380003474 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 1234380003475 active site turn [active] 1234380003476 phosphorylation site [posttranslational modification] 1234380003477 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1234380003478 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1234380003479 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1234380003480 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1234380003481 beta-galactosidase; Region: BGL; TIGR03356 1234380003482 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 1234380003483 active site 1234380003484 P-loop; other site 1234380003485 phosphorylation site [posttranslational modification] 1234380003486 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1234380003487 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1234380003488 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 1234380003489 methionine cluster; other site 1234380003490 active site 1234380003491 phosphorylation site [posttranslational modification] 1234380003492 metal binding site [ion binding]; metal-binding site 1234380003493 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1234380003494 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1234380003495 active site 1234380003496 PHP Thumb interface [polypeptide binding]; other site 1234380003497 metal binding site [ion binding]; metal-binding site 1234380003498 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 1234380003499 generic binding surface II; other site 1234380003500 generic binding surface I; other site 1234380003501 histidinol dehydrogenase; Region: hisD; TIGR00069 1234380003502 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 1234380003503 NAD binding site [chemical binding]; other site 1234380003504 dimerization interface [polypeptide binding]; other site 1234380003505 product binding site; other site 1234380003506 substrate binding site [chemical binding]; other site 1234380003507 zinc binding site [ion binding]; other site 1234380003508 catalytic residues [active] 1234380003509 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 1234380003510 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 1234380003511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380003512 homodimer interface [polypeptide binding]; other site 1234380003513 catalytic residue [active] 1234380003514 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1234380003515 putative active site pocket [active] 1234380003516 4-fold oligomerization interface [polypeptide binding]; other site 1234380003517 metal binding residues [ion binding]; metal-binding site 1234380003518 3-fold/trimer interface [polypeptide binding]; other site 1234380003519 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1234380003520 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1234380003521 putative active site [active] 1234380003522 oxyanion strand; other site 1234380003523 catalytic triad [active] 1234380003524 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 1234380003525 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1234380003526 catalytic residues [active] 1234380003527 hypothetical protein; Validated; Region: PRK00110 1234380003528 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 1234380003529 active site 1234380003530 putative DNA-binding cleft [nucleotide binding]; other site 1234380003531 dimer interface [polypeptide binding]; other site 1234380003532 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1234380003533 RuvA N terminal domain; Region: RuvA_N; pfam01330 1234380003534 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1234380003535 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 1234380003536 Walker A motif; other site 1234380003537 ATP binding site [chemical binding]; other site 1234380003538 Walker B motif; other site 1234380003539 arginine finger; other site 1234380003540 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1234380003541 Preprotein translocase subunit; Region: YajC; pfam02699 1234380003542 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 1234380003543 Protein export membrane protein; Region: SecD_SecF; cl14618 1234380003544 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1234380003545 Protein export membrane protein; Region: SecD_SecF; pfam02355 1234380003546 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380003547 active site 1234380003548 Ion channel; Region: Ion_trans_2; pfam07885 1234380003549 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1234380003550 TrkA-N domain; Region: TrkA_N; pfam02254 1234380003551 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1234380003552 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1234380003553 Zn2+ binding site [ion binding]; other site 1234380003554 Mg2+ binding site [ion binding]; other site 1234380003555 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1234380003556 synthetase active site [active] 1234380003557 NTP binding site [chemical binding]; other site 1234380003558 metal binding site [ion binding]; metal-binding site 1234380003559 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 1234380003560 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1234380003561 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1234380003562 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1234380003563 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1234380003564 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1234380003565 histidyl-tRNA synthetase; Region: hisS; TIGR00442 1234380003566 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 1234380003567 dimer interface [polypeptide binding]; other site 1234380003568 motif 1; other site 1234380003569 active site 1234380003570 motif 2; other site 1234380003571 motif 3; other site 1234380003572 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 1234380003573 anticodon binding site; other site 1234380003574 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1234380003575 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1234380003576 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1234380003577 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1234380003578 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1234380003579 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1234380003580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 1234380003581 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1234380003582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1234380003583 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380003584 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1234380003585 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 1234380003586 dimer interface [polypeptide binding]; other site 1234380003587 anticodon binding site; other site 1234380003588 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 1234380003589 homodimer interface [polypeptide binding]; other site 1234380003590 motif 1; other site 1234380003591 active site 1234380003592 motif 2; other site 1234380003593 GAD domain; Region: GAD; pfam02938 1234380003594 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 1234380003595 active site 1234380003596 motif 3; other site 1234380003597 recombination factor protein RarA; Reviewed; Region: PRK13342 1234380003598 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 1234380003599 Walker A motif; other site 1234380003600 ATP binding site [chemical binding]; other site 1234380003601 Walker B motif; other site 1234380003602 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1234380003603 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1234380003604 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 1234380003605 motif 1; other site 1234380003606 active site 1234380003607 motif 2; other site 1234380003608 motif 3; other site 1234380003609 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1234380003610 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1234380003611 YceG-like family; Region: YceG; pfam02618 1234380003612 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1234380003613 dimerization interface [polypeptide binding]; other site 1234380003614 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1234380003615 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1234380003616 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1234380003617 shikimate binding site; other site 1234380003618 NAD(P) binding site [chemical binding]; other site 1234380003619 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1234380003620 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1234380003621 Tetramer interface [polypeptide binding]; other site 1234380003622 active site 1234380003623 FMN-binding site [chemical binding]; other site 1234380003624 shikimate kinase; Reviewed; Region: aroK; PRK00131 1234380003625 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 1234380003626 ADP binding site [chemical binding]; other site 1234380003627 magnesium binding site [ion binding]; other site 1234380003628 putative shikimate binding site; other site 1234380003629 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1234380003630 dimer interface [polypeptide binding]; other site 1234380003631 active site 1234380003632 metal binding site [ion binding]; metal-binding site 1234380003633 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1234380003634 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1234380003635 putative active site [active] 1234380003636 putative metal binding site [ion binding]; other site 1234380003637 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1234380003638 elongation factor P; Validated; Region: PRK00529 1234380003639 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1234380003640 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 1234380003641 RNA binding site [nucleotide binding]; other site 1234380003642 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 1234380003643 RNA binding site [nucleotide binding]; other site 1234380003644 transcription antitermination factor NusB; Region: nusB; TIGR01951 1234380003645 putative RNA binding site [nucleotide binding]; other site 1234380003646 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1234380003647 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1234380003648 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 1234380003649 catalytic site [active] 1234380003650 G-X2-G-X-G-K; other site 1234380003651 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1234380003652 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1234380003653 Flavoprotein; Region: Flavoprotein; pfam02441 1234380003654 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1234380003655 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1234380003656 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1234380003657 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1234380003658 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1234380003659 primosome assembly protein PriA; Provisional; Region: PRK14873 1234380003660 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1234380003661 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1234380003662 putative active site [active] 1234380003663 substrate binding site [chemical binding]; other site 1234380003664 putative cosubstrate binding site; other site 1234380003665 catalytic site [active] 1234380003666 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1234380003667 substrate binding site [chemical binding]; other site 1234380003668 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1234380003669 putative RNA binding site [nucleotide binding]; other site 1234380003670 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1234380003671 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 1234380003672 S-adenosylmethionine binding site [chemical binding]; other site 1234380003673 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 1234380003674 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1234380003675 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 1234380003676 substrate binding site [chemical binding]; other site 1234380003677 hexamer interface [polypeptide binding]; other site 1234380003678 metal binding site [ion binding]; metal-binding site 1234380003679 PAC2 family; Region: PAC2; pfam09754 1234380003680 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1234380003681 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1234380003682 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 1234380003683 motif II; other site 1234380003684 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 1234380003685 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 1234380003686 S-adenosylmethionine binding site [chemical binding]; other site 1234380003687 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 1234380003688 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1234380003689 Predicted membrane protein [Function unknown]; Region: COG1511 1234380003690 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1234380003691 ABC transporter; Region: ABC_tran; pfam00005 1234380003692 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 1234380003693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1234380003694 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380003695 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 1234380003696 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 1234380003697 active site 1234380003698 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 1234380003699 prephenate dehydrogenase; Validated; Region: PRK06545 1234380003700 prephenate dehydrogenase; Validated; Region: PRK08507 1234380003701 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1234380003702 cytidylate kinase; Provisional; Region: cmk; PRK00023 1234380003703 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 1234380003704 CMP-binding site; other site 1234380003705 GTP-binding protein Der; Reviewed; Region: PRK03003 1234380003706 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1234380003707 G1 box; other site 1234380003708 GTP/Mg2+ binding site [chemical binding]; other site 1234380003709 Switch I region; other site 1234380003710 G2 box; other site 1234380003711 Switch II region; other site 1234380003712 G3 box; other site 1234380003713 G4 box; other site 1234380003714 G5 box; other site 1234380003715 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1234380003716 G1 box; other site 1234380003717 GTP/Mg2+ binding site [chemical binding]; other site 1234380003718 Switch I region; other site 1234380003719 G2 box; other site 1234380003720 G3 box; other site 1234380003721 Switch II region; other site 1234380003722 G4 box; other site 1234380003723 G5 box; other site 1234380003724 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1234380003725 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 1234380003726 substrate binding site [chemical binding]; other site 1234380003727 dimer interface [polypeptide binding]; other site 1234380003728 ATP binding site [chemical binding]; other site 1234380003729 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 1234380003730 active site 1234380003731 catalytic residues [active] 1234380003732 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1234380003733 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 1234380003734 putative substrate translocation pore; other site 1234380003735 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1234380003736 intersubunit interface [polypeptide binding]; other site 1234380003737 active site 1234380003738 catalytic residue [active] 1234380003739 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1234380003740 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1234380003741 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 1234380003742 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1234380003743 active site 1234380003744 motif I; other site 1234380003745 motif II; other site 1234380003746 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1234380003747 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1234380003748 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1234380003749 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 1234380003750 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1234380003751 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 1234380003752 putative DNA binding site [nucleotide binding]; other site 1234380003753 putative Zn2+ binding site [ion binding]; other site 1234380003754 AsnC family; Region: AsnC_trans_reg; pfam01037 1234380003755 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 1234380003756 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1234380003757 putative active site [active] 1234380003758 catalytic triad [active] 1234380003759 putative dimer interface [polypeptide binding]; other site 1234380003760 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1234380003761 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1234380003762 Ligand binding site; other site 1234380003763 Putative Catalytic site; other site 1234380003764 DXD motif; other site 1234380003765 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 1234380003766 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 1234380003767 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1234380003768 putative active site [active] 1234380003769 catalytic site [active] 1234380003770 putative metal binding site [ion binding]; other site 1234380003771 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 1234380003772 dimer interface [polypeptide binding]; other site 1234380003773 pyridoxamine kinase; Validated; Region: PRK05756 1234380003774 pyridoxal binding site [chemical binding]; other site 1234380003775 ATP binding site [chemical binding]; other site 1234380003776 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1234380003777 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 1234380003778 non-specific DNA binding site [nucleotide binding]; other site 1234380003779 salt bridge; other site 1234380003780 sequence-specific DNA binding site [nucleotide binding]; other site 1234380003781 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1234380003782 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 1234380003783 putative active site [active] 1234380003784 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 1234380003785 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1234380003786 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380003787 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1234380003788 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1234380003789 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 1234380003790 dimerization interface [polypeptide binding]; other site 1234380003791 putative DNA binding site [nucleotide binding]; other site 1234380003792 putative Zn2+ binding site [ion binding]; other site 1234380003793 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 1234380003794 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380003795 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380003796 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380003797 hypothetical protein; Provisional; Region: PRK09256 1234380003798 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1234380003799 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 1234380003800 putative substrate translocation pore; other site 1234380003801 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1234380003802 MarR family; Region: MarR; pfam01047 1234380003803 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1234380003804 Fe-S cluster binding site [ion binding]; other site 1234380003805 DNA binding site [nucleotide binding] 1234380003806 active site 1234380003807 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1234380003808 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 1234380003809 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1234380003810 gamma subunit interface [polypeptide binding]; other site 1234380003811 epsilon subunit interface [polypeptide binding]; other site 1234380003812 LBP interface [polypeptide binding]; other site 1234380003813 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1234380003814 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1234380003815 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 1234380003816 alpha subunit interaction interface [polypeptide binding]; other site 1234380003817 Walker A motif; other site 1234380003818 ATP binding site [chemical binding]; other site 1234380003819 Walker B motif; other site 1234380003820 inhibitor binding site; inhibition site 1234380003821 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1234380003822 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1234380003823 core domain interface [polypeptide binding]; other site 1234380003824 delta subunit interface [polypeptide binding]; other site 1234380003825 epsilon subunit interface [polypeptide binding]; other site 1234380003826 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1234380003827 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1234380003828 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 1234380003829 beta subunit interaction interface [polypeptide binding]; other site 1234380003830 Walker A motif; other site 1234380003831 ATP binding site [chemical binding]; other site 1234380003832 Walker B motif; other site 1234380003833 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1234380003834 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 1234380003835 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1234380003836 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1234380003837 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1234380003838 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1234380003839 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1234380003840 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1234380003841 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1234380003842 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1234380003843 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 1234380003844 putative catalytic motif [active] 1234380003845 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1234380003846 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1234380003847 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 1234380003848 S-adenosylmethionine binding site [chemical binding]; other site 1234380003849 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1234380003850 PCRF domain; Region: PCRF; pfam03462 1234380003851 RF-1 domain; Region: RF-1; pfam00472 1234380003852 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1234380003853 transcription termination factor Rho; Provisional; Region: PRK12678 1234380003854 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1234380003855 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 1234380003856 RNA binding site [nucleotide binding]; other site 1234380003857 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1234380003858 Walker A motif; other site 1234380003859 ATP binding site [chemical binding]; other site 1234380003860 Walker B motif; other site 1234380003861 homoserine kinase; Provisional; Region: PRK01212 1234380003862 threonine synthase; Reviewed; Region: PRK06721 1234380003863 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 1234380003864 homodimer interface [polypeptide binding]; other site 1234380003865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380003866 catalytic residue [active] 1234380003867 homoserine dehydrogenase; Provisional; Region: PRK06349 1234380003868 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1234380003869 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1234380003870 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1234380003871 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1234380003872 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1234380003873 active site 1234380003874 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1234380003875 substrate binding site [chemical binding]; other site 1234380003876 catalytic residues [active] 1234380003877 dimer interface [polypeptide binding]; other site 1234380003878 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 1234380003879 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1234380003880 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 1234380003881 TPP-binding site [chemical binding]; other site 1234380003882 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1234380003883 Transcription factor WhiB; Region: Whib; pfam02467 1234380003884 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 1234380003885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1234380003886 Histidine kinase; Region: HisKA_2; pfam07568 1234380003887 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 1234380003888 ATP binding site [chemical binding]; other site 1234380003889 Mg2+ binding site [ion binding]; other site 1234380003890 G-X-G motif; other site 1234380003891 anti-sigma factor, TIGR02949 family; Region: anti_SigH_actin 1234380003892 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 1234380003893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1234380003894 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 1234380003895 DNA binding residues [nucleotide binding] 1234380003896 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1234380003897 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 1234380003898 hinge; other site 1234380003899 active site 1234380003900 Predicted GTPases [General function prediction only]; Region: COG1162 1234380003901 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1234380003902 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1234380003903 GTP/Mg2+ binding site [chemical binding]; other site 1234380003904 G4 box; other site 1234380003905 G5 box; other site 1234380003906 G1 box; other site 1234380003907 Switch I region; other site 1234380003908 G2 box; other site 1234380003909 G3 box; other site 1234380003910 Switch II region; other site 1234380003911 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1234380003912 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1234380003913 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1234380003914 active site 1234380003915 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1234380003916 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1234380003917 ligand binding site [chemical binding]; other site 1234380003918 NAD binding site [chemical binding]; other site 1234380003919 tetramer interface [polypeptide binding]; other site 1234380003920 catalytic site [active] 1234380003921 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1234380003922 L-serine binding site [chemical binding]; other site 1234380003923 ACT domain interface; other site 1234380003924 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1234380003925 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1234380003926 Walker A/P-loop; other site 1234380003927 ATP binding site [chemical binding]; other site 1234380003928 Q-loop/lid; other site 1234380003929 ABC transporter signature motif; other site 1234380003930 Walker B; other site 1234380003931 D-loop; other site 1234380003932 H-loop/switch region; other site 1234380003933 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1234380003934 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1234380003935 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1234380003936 Walker A/P-loop; other site 1234380003937 ATP binding site [chemical binding]; other site 1234380003938 Q-loop/lid; other site 1234380003939 ABC transporter signature motif; other site 1234380003940 Walker B; other site 1234380003941 D-loop; other site 1234380003942 H-loop/switch region; other site 1234380003943 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1234380003944 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 1234380003945 dimer interface [polypeptide binding]; other site 1234380003946 conserved gate region; other site 1234380003947 putative PBP binding loops; other site 1234380003948 ABC-ATPase subunit interface; other site 1234380003949 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1234380003950 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 1234380003951 dimer interface [polypeptide binding]; other site 1234380003952 conserved gate region; other site 1234380003953 putative PBP binding loops; other site 1234380003954 ABC-ATPase subunit interface; other site 1234380003955 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1234380003956 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 1234380003957 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 1234380003958 sequence-specific DNA binding site [nucleotide binding]; other site 1234380003959 salt bridge; other site 1234380003960 AAA domain; Region: AAA_31; pfam13614 1234380003961 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 1234380003962 P-loop; other site 1234380003963 Magnesium ion binding site [ion binding]; other site 1234380003964 Domain of unknown function (DUF929); Region: DUF929; pfam06053 1234380003965 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1234380003966 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1234380003967 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 1234380003968 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1234380003969 AMP binding site [chemical binding]; other site 1234380003970 active site 1234380003971 acyl-activating enzyme (AAE) consensus motif; other site 1234380003972 CoA binding site [chemical binding]; other site 1234380003973 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1234380003974 Condensation domain; Region: Condensation; pfam00668 1234380003975 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1234380003976 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1234380003977 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 1234380003978 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1234380003979 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 1234380003980 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 1234380003981 dimer interface [polypeptide binding]; other site 1234380003982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380003983 catalytic residue [active] 1234380003984 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1234380003985 ParB-like nuclease domain; Region: ParBc; cl02129 1234380003986 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1234380003987 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 1234380003988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1234380003989 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1234380003990 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1234380003991 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 1234380003992 Ligand Binding Site [chemical binding]; other site 1234380003993 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1234380003994 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 1234380003995 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1234380003996 Uncharacterized conserved protein (DUF2342); Region: DUF2342; pfam10103 1234380003997 Protein of unknown function DUF45; Region: DUF45; pfam01863 1234380003998 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1234380003999 Part of AAA domain; Region: AAA_19; pfam13245 1234380004000 Family description; Region: UvrD_C_2; pfam13538 1234380004001 HRDC domain; Region: HRDC; pfam00570 1234380004002 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1234380004003 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1234380004004 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 1234380004005 Part of AAA domain; Region: AAA_19; pfam13245 1234380004006 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1234380004007 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1234380004008 AAA domain; Region: AAA_30; pfam13604 1234380004009 Family description; Region: UvrD_C_2; pfam13538 1234380004010 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1234380004011 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 1234380004012 putative NADH binding site [chemical binding]; other site 1234380004013 putative active site [active] 1234380004014 nudix motif; other site 1234380004015 putative metal binding site [ion binding]; other site 1234380004016 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1234380004017 Part of AAA domain; Region: AAA_19; pfam13245 1234380004018 Family description; Region: UvrD_C_2; pfam13538 1234380004019 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1234380004020 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1234380004021 Part of AAA domain; Region: AAA_19; pfam13245 1234380004022 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1234380004023 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1234380004024 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1234380004025 active site 1234380004026 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 1234380004027 tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like; Region: MiaE_2; pfam13794 1234380004028 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1234380004029 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 1234380004030 ATP binding site [chemical binding]; other site 1234380004031 Mg++ binding site [ion binding]; other site 1234380004032 motif III; other site 1234380004033 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 1234380004034 nucleotide binding region [chemical binding]; other site 1234380004035 ATP-binding site [chemical binding]; other site 1234380004036 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1234380004037 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1234380004038 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1234380004039 active site 1234380004040 HIGH motif; other site 1234380004041 dimer interface [polypeptide binding]; other site 1234380004042 KMSKS motif; other site 1234380004043 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1234380004044 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1234380004045 active site 1234380004046 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1234380004047 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1234380004048 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 1234380004049 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1234380004050 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 1234380004051 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1234380004052 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 1234380004053 30S subunit binding site; other site 1234380004054 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1234380004055 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380004056 active site 1234380004057 Sporulation and spore germination; Region: Germane; cl11253 1234380004058 Lipoprotein LpqB beta-propeller domain; Region: Gmad1; pfam10647 1234380004059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1234380004060 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 1234380004061 ATP binding site [chemical binding]; other site 1234380004062 Mg2+ binding site [ion binding]; other site 1234380004063 G-X-G motif; other site 1234380004064 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380004065 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380004066 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380004067 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1234380004068 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 1234380004069 dimerization interface [polypeptide binding]; other site 1234380004070 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 1234380004071 dimer interface [polypeptide binding]; other site 1234380004072 phosphorylation site [posttranslational modification] 1234380004073 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1234380004074 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 1234380004075 active site 1234380004076 phosphorylation site [posttranslational modification] 1234380004077 intermolecular recognition site; other site 1234380004078 dimerization interface [polypeptide binding]; other site 1234380004079 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 1234380004080 DNA binding site [nucleotide binding] 1234380004081 hypothetical protein; Validated; Region: PRK00228 1234380004082 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 1234380004083 ribbon-helix-helix domain containing protein; Region: PHA00617 1234380004084 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 1234380004085 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 1234380004086 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; cl00083 1234380004087 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 1234380004088 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 1234380004089 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 1234380004090 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 1234380004091 Tic20-like protein; Region: Tic20; pfam09685 1234380004092 argininosuccinate lyase; Provisional; Region: PRK00855 1234380004093 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1234380004094 active sites [active] 1234380004095 tetramer interface [polypeptide binding]; other site 1234380004096 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 1234380004097 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 1234380004098 inhibitor-cofactor binding pocket; inhibition site 1234380004099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380004100 catalytic residue [active] 1234380004101 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1234380004102 feedback inhibition sensing region; other site 1234380004103 homohexameric interface [polypeptide binding]; other site 1234380004104 nucleotide binding site [chemical binding]; other site 1234380004105 N-acetyl-L-glutamate binding site [chemical binding]; other site 1234380004106 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1234380004107 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1234380004108 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1234380004109 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1234380004110 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 1234380004111 SmpB-tmRNA interface; other site 1234380004112 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1234380004113 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1234380004114 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1234380004115 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380004116 Walker A/P-loop; other site 1234380004117 ATP binding site [chemical binding]; other site 1234380004118 Q-loop/lid; other site 1234380004119 ABC transporter signature motif; other site 1234380004120 Walker B; other site 1234380004121 D-loop; other site 1234380004122 H-loop/switch region; other site 1234380004123 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1234380004124 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1234380004125 RF-1 domain; Region: RF-1; pfam00472 1234380004126 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1234380004127 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1234380004128 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1234380004129 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1234380004130 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1234380004131 thiamine monophosphate kinase; Provisional; Region: PRK05731 1234380004132 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 1234380004133 ATP binding site [chemical binding]; other site 1234380004134 dimerization interface [polypeptide binding]; other site 1234380004135 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 1234380004136 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1234380004137 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1234380004138 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1234380004139 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1234380004140 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1234380004141 putative acyl-acceptor binding pocket; other site 1234380004142 hypothetical protein; Provisional; Region: PRK14812 1234380004143 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1234380004144 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1234380004145 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1234380004146 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1234380004147 Bacterial transcriptional regulator; Region: IclR; pfam01614 1234380004148 CAAX protease self-immunity; Region: Abi; pfam02517 1234380004149 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1234380004150 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 1234380004151 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1234380004152 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 1234380004153 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1234380004154 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1234380004155 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1234380004156 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1234380004157 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 1234380004158 homodimer interface [polypeptide binding]; other site 1234380004159 substrate-cofactor binding pocket; other site 1234380004160 catalytic residue [active] 1234380004161 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1234380004162 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1234380004163 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1234380004164 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1234380004165 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1234380004166 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1234380004167 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1234380004168 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1234380004169 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1234380004170 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 1234380004171 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1234380004172 HIT family signature motif; other site 1234380004173 catalytic residue [active] 1234380004174 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 1234380004175 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1234380004176 substrate binding site [chemical binding]; other site 1234380004177 glutamase interaction surface [polypeptide binding]; other site 1234380004178 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 1234380004179 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 1234380004180 ATP binding site [chemical binding]; other site 1234380004181 putative Mg++ binding site [ion binding]; other site 1234380004182 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 1234380004183 nucleotide binding region [chemical binding]; other site 1234380004184 ATP-binding site [chemical binding]; other site 1234380004185 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 1234380004186 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 1234380004187 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1234380004188 Predicted transcriptional regulator [Transcription]; Region: COG2378 1234380004189 WYL domain; Region: WYL; pfam13280 1234380004190 Predicted transcriptional regulator [Transcription]; Region: COG2378 1234380004191 WYL domain; Region: WYL; pfam13280 1234380004192 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1234380004193 active site 1234380004194 HIGH motif; other site 1234380004195 nucleotide binding site [chemical binding]; other site 1234380004196 active site 1234380004197 KMSKS motif; other site 1234380004198 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1234380004199 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1234380004200 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1234380004201 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 1234380004202 RNA binding surface [nucleotide binding]; other site 1234380004203 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1234380004204 active site 1234380004205 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1234380004206 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 1234380004207 P-loop; other site 1234380004208 Magnesium ion binding site [ion binding]; other site 1234380004209 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 1234380004210 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 1234380004211 Magnesium ion binding site [ion binding]; other site 1234380004212 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1234380004213 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 1234380004214 active site 1234380004215 Int/Topo IB signature motif; other site 1234380004216 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 1234380004217 dimer interface [polypeptide binding]; other site 1234380004218 ADP-ribose binding site [chemical binding]; other site 1234380004219 active site 1234380004220 nudix motif; other site 1234380004221 metal binding site [ion binding]; metal-binding site 1234380004222 CTP synthetase; Validated; Region: pyrG; PRK05380 1234380004223 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 1234380004224 Catalytic site [active] 1234380004225 active site 1234380004226 UTP binding site [chemical binding]; other site 1234380004227 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1234380004228 active site 1234380004229 putative oxyanion hole; other site 1234380004230 catalytic triad [active] 1234380004231 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1234380004232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380004233 Walker A/P-loop; other site 1234380004234 ATP binding site [chemical binding]; other site 1234380004235 Q-loop/lid; other site 1234380004236 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1234380004237 ABC transporter signature motif; other site 1234380004238 Walker B; other site 1234380004239 D-loop; other site 1234380004240 H-loop/switch region; other site 1234380004241 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 1234380004242 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1234380004243 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1234380004244 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 1234380004245 RNA binding surface [nucleotide binding]; other site 1234380004246 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1234380004247 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1234380004248 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1234380004249 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1234380004250 Walker A/P-loop; other site 1234380004251 ATP binding site [chemical binding]; other site 1234380004252 Q-loop/lid; other site 1234380004253 ABC transporter signature motif; other site 1234380004254 Walker B; other site 1234380004255 D-loop; other site 1234380004256 H-loop/switch region; other site 1234380004257 BioY family; Region: BioY; pfam02632 1234380004258 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1234380004259 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 1234380004260 active site 1234380004261 motif I; other site 1234380004262 motif II; other site 1234380004263 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 1234380004264 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1234380004265 potential RNA of insufficient length (23S ribosomal RNA) 1234380004266 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1234380004267 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1234380004268 active site 1234380004269 HIGH motif; other site 1234380004270 dimer interface [polypeptide binding]; other site 1234380004271 KMSKS motif; other site 1234380004272 arginine repressor; Provisional; Region: PRK03341 1234380004273 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1234380004274 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1234380004275 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1234380004276 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380004277 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1234380004278 biotin synthase; Validated; Region: PRK06256 1234380004279 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 1234380004280 FeS/SAM binding site; other site 1234380004281 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1234380004282 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1234380004283 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 1234380004284 putative tRNA-binding site [nucleotide binding]; other site 1234380004285 B3/4 domain; Region: B3_4; pfam03483 1234380004286 tRNA synthetase B5 domain; Region: B5; pfam03484 1234380004287 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 1234380004288 dimer interface [polypeptide binding]; other site 1234380004289 motif 1; other site 1234380004290 motif 3; other site 1234380004291 motif 2; other site 1234380004292 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1234380004293 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1234380004294 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1234380004295 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 1234380004296 dimer interface [polypeptide binding]; other site 1234380004297 motif 1; other site 1234380004298 active site 1234380004299 motif 2; other site 1234380004300 motif 3; other site 1234380004301 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1234380004302 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1234380004303 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1234380004304 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1234380004305 23S rRNA binding site [nucleotide binding]; other site 1234380004306 L21 binding site [polypeptide binding]; other site 1234380004307 L13 binding site [polypeptide binding]; other site 1234380004308 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1234380004309 translation initiation factor IF-3; Region: infC; TIGR00168 1234380004310 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1234380004311 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1234380004312 Protein of unknown function (DUF418); Region: DUF418; cl12135 1234380004313 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1234380004314 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1234380004315 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1234380004316 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 1234380004317 homodimer interface [polypeptide binding]; other site 1234380004318 putative metal binding site [ion binding]; other site 1234380004319 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1234380004320 conserved hypothetical protein; Region: TIGR03843 1234380004321 conserved hypothetical protein; Region: TIGR03847 1234380004322 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 1234380004323 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1234380004324 active site 1234380004325 catalytic tetrad [active] 1234380004326 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 1234380004327 dimer interface [polypeptide binding]; other site 1234380004328 Citrate synthase; Region: Citrate_synt; pfam00285 1234380004329 active site 1234380004330 citrylCoA binding site [chemical binding]; other site 1234380004331 NADH binding [chemical binding]; other site 1234380004332 cationic pore residues; other site 1234380004333 oxalacetate/citrate binding site [chemical binding]; other site 1234380004334 coenzyme A binding site [chemical binding]; other site 1234380004335 catalytic triad [active] 1234380004336 hypothetical protein; Provisional; Region: PRK07906 1234380004337 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1234380004338 putative metal binding site [ion binding]; other site 1234380004339 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1234380004340 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1234380004341 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1234380004342 CsbD-like; Region: CsbD; pfam05532 1234380004343 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1234380004344 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 1234380004345 DNA binding site [nucleotide binding] 1234380004346 active site 1234380004347 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1234380004348 DNA protecting protein DprA; Region: dprA; TIGR00732 1234380004349 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1234380004350 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1234380004351 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 1234380004352 Walker A motif; other site 1234380004353 ATP binding site [chemical binding]; other site 1234380004354 Walker B motif; other site 1234380004355 arginine finger; other site 1234380004356 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1234380004357 hypothetical protein; Reviewed; Region: PRK12497 1234380004358 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 1234380004359 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1234380004360 RNA/DNA hybrid binding site [nucleotide binding]; other site 1234380004361 active site 1234380004362 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1234380004363 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 1234380004364 Catalytic site [active] 1234380004365 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1234380004366 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1234380004367 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1234380004368 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 1234380004369 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 1234380004370 L-aspartate oxidase; Provisional; Region: PRK06175 1234380004371 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1234380004372 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1234380004373 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 1234380004374 proximal heme binding site [chemical binding]; other site 1234380004375 distal heme binding site [chemical binding]; other site 1234380004376 putative dimer interface [polypeptide binding]; other site 1234380004377 putative Iron-sulfur protein interface [polypeptide binding]; other site 1234380004378 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1234380004379 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1234380004380 RimM N-terminal domain; Region: RimM; pfam01782 1234380004381 PRC-barrel domain; Region: PRC; pfam05239 1234380004382 hypothetical protein; Provisional; Region: PRK02821 1234380004383 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1234380004384 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 1234380004385 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 1234380004386 Amidohydrolase; Region: Amidohydro_4; pfam13147 1234380004387 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 1234380004388 active site 1234380004389 signal recognition particle protein; Provisional; Region: PRK10867 1234380004390 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1234380004391 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 1234380004392 P loop; other site 1234380004393 GTP binding site [chemical binding]; other site 1234380004394 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1234380004395 Predicted esterase [General function prediction only]; Region: COG0627 1234380004396 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 1234380004397 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1234380004398 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 1234380004399 P loop; other site 1234380004400 GTP binding site [chemical binding]; other site 1234380004401 Predicted membrane protein [Function unknown]; Region: COG2246 1234380004402 GtrA-like protein; Region: GtrA; pfam04138 1234380004403 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 1234380004404 HicB family; Region: HicB; pfam05534 1234380004405 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK13945 1234380004406 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1234380004407 DNA binding site [nucleotide binding] 1234380004408 H2TH interface [polypeptide binding]; other site 1234380004409 putative catalytic residues [active] 1234380004410 turnover-facilitating residue; other site 1234380004411 intercalation triad [nucleotide binding]; other site 1234380004412 8OG recognition residue [nucleotide binding]; other site 1234380004413 putative reading head residues; other site 1234380004414 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1234380004415 ribonuclease III; Reviewed; Region: rnc; PRK00102 1234380004416 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 1234380004417 dimerization interface [polypeptide binding]; other site 1234380004418 active site 1234380004419 metal binding site [ion binding]; metal-binding site 1234380004420 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 1234380004421 dsRNA binding site [nucleotide binding]; other site 1234380004422 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1234380004423 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1234380004424 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1234380004425 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1234380004426 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1234380004427 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 1234380004428 dimer interface [polypeptide binding]; other site 1234380004429 conserved gate region; other site 1234380004430 putative PBP binding loops; other site 1234380004431 ABC-ATPase subunit interface; other site 1234380004432 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380004433 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 1234380004434 dimer interface [polypeptide binding]; other site 1234380004435 conserved gate region; other site 1234380004436 putative PBP binding loops; other site 1234380004437 ABC-ATPase subunit interface; other site 1234380004438 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380004439 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380004440 DNA binding site [nucleotide binding] 1234380004441 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 1234380004442 ligand binding site [chemical binding]; other site 1234380004443 dimerization interface [polypeptide binding]; other site 1234380004444 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1234380004445 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 1234380004446 active site 1234380004447 catalytic site [active] 1234380004448 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 1234380004449 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 1234380004450 Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine...; Region: GH20_GcnA-like; cd06565 1234380004451 putative active site [active] 1234380004452 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1234380004453 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 1234380004454 dimer interface [polypeptide binding]; other site 1234380004455 conserved gate region; other site 1234380004456 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1234380004457 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 1234380004458 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1234380004459 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 1234380004460 dimer interface [polypeptide binding]; other site 1234380004461 conserved gate region; other site 1234380004462 putative PBP binding loops; other site 1234380004463 ABC-ATPase subunit interface; other site 1234380004464 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1234380004465 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1234380004466 Walker A/P-loop; other site 1234380004467 ATP binding site [chemical binding]; other site 1234380004468 Q-loop/lid; other site 1234380004469 ABC transporter signature motif; other site 1234380004470 Walker B; other site 1234380004471 D-loop; other site 1234380004472 H-loop/switch region; other site 1234380004473 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1234380004474 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1234380004475 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1234380004476 Walker A/P-loop; other site 1234380004477 ATP binding site [chemical binding]; other site 1234380004478 Q-loop/lid; other site 1234380004479 ABC transporter signature motif; other site 1234380004480 Walker B; other site 1234380004481 D-loop; other site 1234380004482 H-loop/switch region; other site 1234380004483 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1234380004484 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1234380004485 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 1234380004486 substrate binding site [chemical binding]; other site 1234380004487 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 1234380004488 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1234380004489 active site 1234380004490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1234380004491 active site 1234380004492 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1234380004493 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1234380004494 active site 1234380004495 (T/H)XGH motif; other site 1234380004496 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1234380004497 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 1234380004498 S-adenosylmethionine binding site [chemical binding]; other site 1234380004499 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1234380004500 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1234380004501 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 1234380004502 ssDNA binding site; other site 1234380004503 generic binding surface II; other site 1234380004504 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 1234380004505 ATP binding site [chemical binding]; other site 1234380004506 putative Mg++ binding site [ion binding]; other site 1234380004507 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 1234380004508 nucleotide binding region [chemical binding]; other site 1234380004509 ATP-binding site [chemical binding]; other site 1234380004510 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1234380004511 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1234380004512 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1234380004513 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1234380004514 pyruvate dehydrogenase; Provisional; Region: PRK06546 1234380004515 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1234380004516 PYR/PP interface [polypeptide binding]; other site 1234380004517 dimer interface [polypeptide binding]; other site 1234380004518 tetramer interface [polypeptide binding]; other site 1234380004519 TPP binding site [chemical binding]; other site 1234380004520 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1234380004521 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 1234380004522 TPP-binding site [chemical binding]; other site 1234380004523 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1234380004524 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1234380004525 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1234380004526 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1234380004527 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 1234380004528 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1234380004529 oligomer interface [polypeptide binding]; other site 1234380004530 RNA binding site [nucleotide binding]; other site 1234380004531 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1234380004532 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1234380004533 RNase E interface [polypeptide binding]; other site 1234380004534 trimer interface [polypeptide binding]; other site 1234380004535 active site 1234380004536 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 1234380004537 putative nucleic acid binding region [nucleotide binding]; other site 1234380004538 G-X-X-G motif; other site 1234380004539 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 1234380004540 RNA binding site [nucleotide binding]; other site 1234380004541 domain interface; other site 1234380004542 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 1234380004543 16S/18S rRNA binding site [nucleotide binding]; other site 1234380004544 S13e-L30e interaction site [polypeptide binding]; other site 1234380004545 25S rRNA binding site [nucleotide binding]; other site 1234380004546 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1234380004547 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1234380004548 active site 1234380004549 Riboflavin kinase; Region: Flavokinase; smart00904 1234380004550 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1234380004551 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1234380004552 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1234380004553 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 1234380004554 dimer interface [polypeptide binding]; other site 1234380004555 conserved gate region; other site 1234380004556 ABC-ATPase subunit interface; other site 1234380004557 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1234380004558 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380004559 Walker A/P-loop; other site 1234380004560 ATP binding site [chemical binding]; other site 1234380004561 Q-loop/lid; other site 1234380004562 ABC transporter signature motif; other site 1234380004563 Walker B; other site 1234380004564 D-loop; other site 1234380004565 H-loop/switch region; other site 1234380004566 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1234380004567 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 1234380004568 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1234380004569 RNA binding site [nucleotide binding]; other site 1234380004570 active site 1234380004571 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 1234380004572 Cupin domain; Region: Cupin_2; cl17218 1234380004573 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1234380004574 HTH domain; Region: HTH_11; pfam08279 1234380004575 HTH domain; Region: HTH_11; pfam08279 1234380004576 PRD domain; Region: PRD; pfam00874 1234380004577 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 1234380004578 active site 1234380004579 P-loop; other site 1234380004580 phosphorylation site [posttranslational modification] 1234380004581 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1234380004582 active site 1234380004583 phosphorylation site [posttranslational modification] 1234380004584 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 1234380004585 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 1234380004586 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1234380004587 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 1234380004588 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1234380004589 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 1234380004590 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; cl00206 1234380004591 dimerization domain swap beta strand [polypeptide binding]; other site 1234380004592 regulatory protein interface [polypeptide binding]; other site 1234380004593 active site 1234380004594 regulatory phosphorylation site [posttranslational modification]; other site 1234380004595 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 1234380004596 active site 1234380004597 metal binding site [ion binding]; metal-binding site 1234380004598 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1234380004599 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1234380004600 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1234380004601 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 1234380004602 Walker A/P-loop; other site 1234380004603 ATP binding site [chemical binding]; other site 1234380004604 Q-loop/lid; other site 1234380004605 ABC transporter signature motif; other site 1234380004606 Walker B; other site 1234380004607 D-loop; other site 1234380004608 H-loop/switch region; other site 1234380004609 translation initiation factor IF-2; Region: IF-2; TIGR00487 1234380004610 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1234380004611 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1234380004612 G1 box; other site 1234380004613 putative GEF interaction site [polypeptide binding]; other site 1234380004614 GTP/Mg2+ binding site [chemical binding]; other site 1234380004615 Switch I region; other site 1234380004616 G2 box; other site 1234380004617 G3 box; other site 1234380004618 Switch II region; other site 1234380004619 G4 box; other site 1234380004620 G5 box; other site 1234380004621 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 1234380004622 Translation-initiation factor 2; Region: IF-2; pfam11987 1234380004623 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 1234380004624 Protein of unknown function (DUF448); Region: DUF448; pfam04296 1234380004625 putative RNA binding cleft [nucleotide binding]; other site 1234380004626 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1234380004627 NusA N-terminal domain; Region: NusA_N; pfam08529 1234380004628 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 1234380004629 RNA binding site [nucleotide binding]; other site 1234380004630 homodimer interface [polypeptide binding]; other site 1234380004631 NusA-like KH domain; Region: KH_5; pfam13184 1234380004632 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 1234380004633 G-X-X-G motif; other site 1234380004634 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1234380004635 Sm and related proteins; Region: Sm_like; cl00259 1234380004636 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1234380004637 putative oligomer interface [polypeptide binding]; other site 1234380004638 putative RNA binding site [nucleotide binding]; other site 1234380004639 hypothetical protein; Provisional; Region: PRK10621 1234380004640 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1234380004641 metallophosphoesterase, PPA1498 family; Region: P_acnes_RR; TIGR03767 1234380004642 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1234380004643 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 1234380004644 dimer interface [polypeptide binding]; other site 1234380004645 motif 1; other site 1234380004646 active site 1234380004647 motif 2; other site 1234380004648 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 1234380004649 putative deacylase active site [active] 1234380004650 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 1234380004651 active site 1234380004652 motif 3; other site 1234380004653 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 1234380004654 anticodon binding site; other site 1234380004655 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 1234380004656 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1234380004657 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 1234380004658 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1234380004659 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1234380004660 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 1234380004661 anchored repeat ABC transporter, substrate-binding protein; Region: anch_rpt_subst; TIGR03772 1234380004662 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1234380004663 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 1234380004664 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1234380004665 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1234380004666 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 1234380004667 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1234380004668 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 1234380004669 ABC-ATPase subunit interface; other site 1234380004670 dimer interface [polypeptide binding]; other site 1234380004671 putative PBP binding regions; other site 1234380004672 Domain of unknown function (DUF4081); Region: DUF4081; pfam13312 1234380004673 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1234380004674 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1234380004675 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1234380004676 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1234380004677 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1234380004678 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1234380004679 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1234380004680 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 1234380004681 active site 1234380004682 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 1234380004683 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1234380004684 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1234380004685 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1234380004686 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1234380004687 Beta-lactamase; Region: Beta-lactamase; pfam00144 1234380004688 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1234380004689 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1234380004690 glutamate dehydrogenase; Provisional; Region: PRK09414 1234380004691 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1234380004692 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1234380004693 NAD(P) binding site [chemical binding]; other site 1234380004694 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 1234380004695 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 1234380004696 FeS/SAM binding site; other site 1234380004697 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1234380004698 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1234380004699 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1234380004700 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1234380004701 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 1234380004702 hinge region; other site 1234380004703 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 1234380004704 putative nucleotide binding site [chemical binding]; other site 1234380004705 uridine monophosphate binding site [chemical binding]; other site 1234380004706 homohexameric interface [polypeptide binding]; other site 1234380004707 elongation factor Ts; Provisional; Region: tsf; PRK09377 1234380004708 UBA/TS-N domain; Region: UBA; pfam00627 1234380004709 Elongation factor TS; Region: EF_TS; pfam00889 1234380004710 Elongation factor TS; Region: EF_TS; pfam00889 1234380004711 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 1234380004712 rRNA interaction site [nucleotide binding]; other site 1234380004713 S8 interaction site; other site 1234380004714 putative laminin-1 binding site; other site 1234380004715 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1234380004716 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 1234380004717 active site 1234380004718 DNA binding site [nucleotide binding] 1234380004719 Int/Topo IB signature motif; other site 1234380004720 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1234380004721 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 1234380004722 active site 1234380004723 catalytic residues [active] 1234380004724 metal binding site [ion binding]; metal-binding site 1234380004725 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1234380004726 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1234380004727 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1234380004728 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1234380004729 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1234380004730 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 1234380004731 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1234380004732 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1234380004733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380004734 Walker A/P-loop; other site 1234380004735 ATP binding site [chemical binding]; other site 1234380004736 Q-loop/lid; other site 1234380004737 ABC transporter signature motif; other site 1234380004738 Walker B; other site 1234380004739 D-loop; other site 1234380004740 H-loop/switch region; other site 1234380004741 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07889 1234380004742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1234380004743 NAD(P) binding site [chemical binding]; other site 1234380004744 active site 1234380004745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1234380004746 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1234380004747 NAD(P) binding site [chemical binding]; other site 1234380004748 active site 1234380004749 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 1234380004750 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1234380004751 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1234380004752 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 1234380004753 S-adenosylmethionine binding site [chemical binding]; other site 1234380004754 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1234380004755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380004756 Walker A/P-loop; other site 1234380004757 ATP binding site [chemical binding]; other site 1234380004758 Q-loop/lid; other site 1234380004759 ABC transporter signature motif; other site 1234380004760 Walker B; other site 1234380004761 D-loop; other site 1234380004762 H-loop/switch region; other site 1234380004763 ABC transporter; Region: ABC_tran_2; pfam12848 1234380004764 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1234380004765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1234380004766 Coenzyme A binding pocket [chemical binding]; other site 1234380004767 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 1234380004768 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1234380004769 phosphate binding site [ion binding]; other site 1234380004770 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1234380004771 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1234380004772 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1234380004773 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1234380004774 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1234380004775 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1234380004776 trimerization site [polypeptide binding]; other site 1234380004777 active site 1234380004778 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1234380004779 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 1234380004780 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1234380004781 catalytic residue [active] 1234380004782 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1234380004783 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1234380004784 Walker A/P-loop; other site 1234380004785 ATP binding site [chemical binding]; other site 1234380004786 Q-loop/lid; other site 1234380004787 ABC transporter signature motif; other site 1234380004788 Walker B; other site 1234380004789 D-loop; other site 1234380004790 H-loop/switch region; other site 1234380004791 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1234380004792 [2Fe-2S] cluster binding site [ion binding]; other site 1234380004793 FeS assembly protein SufD; Region: sufD; TIGR01981 1234380004794 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1234380004795 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1234380004796 FeS assembly protein SufB; Region: sufB; TIGR01980 1234380004797 Predicted transcriptional regulator [Transcription]; Region: COG2345 1234380004798 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 1234380004799 dimerization interface [polypeptide binding]; other site 1234380004800 putative DNA binding site [nucleotide binding]; other site 1234380004801 putative Zn2+ binding site [ion binding]; other site 1234380004802 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1234380004803 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1234380004804 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 1234380004805 dimer interface [polypeptide binding]; other site 1234380004806 conserved gate region; other site 1234380004807 putative PBP binding loops; other site 1234380004808 ABC-ATPase subunit interface; other site 1234380004809 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380004810 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 1234380004811 dimer interface [polypeptide binding]; other site 1234380004812 conserved gate region; other site 1234380004813 putative PBP binding loops; other site 1234380004814 ABC-ATPase subunit interface; other site 1234380004815 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380004816 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380004817 DNA binding site [nucleotide binding] 1234380004818 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_10; cd06292 1234380004819 putative dimerization interface [polypeptide binding]; other site 1234380004820 putative ligand binding site [chemical binding]; other site 1234380004821 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1234380004822 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 1234380004823 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1234380004824 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1234380004825 Walker A/P-loop; other site 1234380004826 ATP binding site [chemical binding]; other site 1234380004827 Q-loop/lid; other site 1234380004828 ABC transporter signature motif; other site 1234380004829 Walker B; other site 1234380004830 D-loop; other site 1234380004831 H-loop/switch region; other site 1234380004832 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1234380004833 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1234380004834 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1234380004835 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1234380004836 potential frameshift: common BLAST hit: gi|295131109|ref|YP_003581772.1| BNR/Asp-box repeat protein 1234380004837 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1234380004838 UbiA prenyltransferase family; Region: UbiA; pfam01040 1234380004839 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1234380004840 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1234380004841 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1234380004842 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 1234380004843 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 1234380004844 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1234380004845 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1234380004846 putative active site [active] 1234380004847 DoxX; Region: DoxX; pfam07681 1234380004848 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380004849 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380004850 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380004851 Thioredoxin; Region: Thioredoxin_4; cl17273 1234380004852 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1234380004853 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1234380004854 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1234380004855 active site 1234380004856 HIGH motif; other site 1234380004857 nucleotide binding site [chemical binding]; other site 1234380004858 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1234380004859 active site 1234380004860 KMSKS motif; other site 1234380004861 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1234380004862 tRNA binding surface [nucleotide binding]; other site 1234380004863 anticodon binding site; other site 1234380004864 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1234380004865 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 1234380004866 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 1234380004867 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1234380004868 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 1234380004869 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1234380004870 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1234380004871 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 1234380004872 protein binding site [polypeptide binding]; other site 1234380004873 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 1234380004874 Domain interface; other site 1234380004875 Peptide binding site; other site 1234380004876 Active site tetrad [active] 1234380004877 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1234380004878 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1234380004879 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 1234380004880 Walker A motif; other site 1234380004881 ATP binding site [chemical binding]; other site 1234380004882 Walker B motif; other site 1234380004883 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1234380004884 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1234380004885 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1234380004886 oligomer interface [polypeptide binding]; other site 1234380004887 active site residues [active] 1234380004888 Clp protease; Region: CLP_protease; pfam00574 1234380004889 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1234380004890 oligomer interface [polypeptide binding]; other site 1234380004891 active site residues [active] 1234380004892 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1234380004893 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1234380004894 trigger factor; Provisional; Region: tig; PRK01490 1234380004895 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1234380004896 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1234380004897 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 1234380004898 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 1234380004899 ATP binding site [chemical binding]; other site 1234380004900 putative Mg++ binding site [ion binding]; other site 1234380004901 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1234380004902 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 1234380004903 nucleotide binding region [chemical binding]; other site 1234380004904 ATP-binding site [chemical binding]; other site 1234380004905 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380004906 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380004907 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380004908 Family description; Region: UvrD_C_2; pfam13538 1234380004909 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1234380004910 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 1234380004911 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1234380004912 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 1234380004913 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1234380004914 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 1234380004915 dimer interface [polypeptide binding]; other site 1234380004916 putative anticodon binding site; other site 1234380004917 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 1234380004918 motif 1; other site 1234380004919 dimer interface [polypeptide binding]; other site 1234380004920 active site 1234380004921 motif 2; other site 1234380004922 motif 3; other site 1234380004923 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1234380004924 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 1234380004925 putative DNA binding site [nucleotide binding]; other site 1234380004926 catalytic residue [active] 1234380004927 putative H2TH interface [polypeptide binding]; other site 1234380004928 putative catalytic residues [active] 1234380004929 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1234380004930 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1234380004931 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1234380004932 hypothetical protein; Provisional; Region: PRK01346 1234380004933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1234380004934 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1234380004935 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 1234380004936 nucleotide binding pocket [chemical binding]; other site 1234380004937 K-X-D-G motif; other site 1234380004938 catalytic site [active] 1234380004939 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1234380004940 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1234380004941 Helix-hairpin-helix motif; Region: HHH; pfam00633 1234380004942 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 1234380004943 Dimer interface [polypeptide binding]; other site 1234380004944 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 1234380004945 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 1234380004946 Zn binding site [ion binding]; other site 1234380004947 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1234380004948 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1234380004949 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1234380004950 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1234380004951 active site 1234380004952 catalytic site [active] 1234380004953 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1234380004954 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1234380004955 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 1234380004956 active site 1234380004957 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 1234380004958 active site 1234380004959 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1234380004960 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1234380004961 acyl-activating enzyme (AAE) consensus motif; other site 1234380004962 putative AMP binding site [chemical binding]; other site 1234380004963 putative active site [active] 1234380004964 putative CoA binding site [chemical binding]; other site 1234380004965 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1234380004966 MarR family; Region: MarR_2; pfam12802 1234380004967 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1234380004968 FAD binding domain; Region: FAD_binding_4; pfam01565 1234380004969 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1234380004970 Predicted transcriptional regulators [Transcription]; Region: COG1695 1234380004971 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1234380004972 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1234380004973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380004974 Walker A/P-loop; other site 1234380004975 ATP binding site [chemical binding]; other site 1234380004976 Q-loop/lid; other site 1234380004977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1234380004978 ABC transporter; Region: ABC_tran_2; pfam12848 1234380004979 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1234380004980 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1234380004981 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 1234380004982 dimer interface [polypeptide binding]; other site 1234380004983 ssDNA binding site [nucleotide binding]; other site 1234380004984 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1234380004985 YfjP GTPase; Region: YfjP; cd11383 1234380004986 G1 box; other site 1234380004987 GTP/Mg2+ binding site [chemical binding]; other site 1234380004988 Switch I region; other site 1234380004989 G2 box; other site 1234380004990 Switch II region; other site 1234380004991 G3 box; other site 1234380004992 G4 box; other site 1234380004993 G5 box; other site 1234380004994 Dynamin family; Region: Dynamin_N; pfam00350 1234380004995 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1234380004996 G1 box; other site 1234380004997 GTP/Mg2+ binding site [chemical binding]; other site 1234380004998 G2 box; other site 1234380004999 Switch I region; other site 1234380005000 Protease prsW family; Region: PrsW-protease; pfam13367 1234380005001 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 1234380005002 putative substrate translocation pore; other site 1234380005003 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1234380005004 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1234380005005 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1234380005006 catalytic site [active] 1234380005007 putative active site [active] 1234380005008 putative substrate binding site [chemical binding]; other site 1234380005009 dimer interface [polypeptide binding]; other site 1234380005010 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1234380005011 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1234380005012 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1234380005013 active site 1234380005014 ATP binding site [chemical binding]; other site 1234380005015 substrate binding site [chemical binding]; other site 1234380005016 activation loop (A-loop); other site 1234380005017 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1234380005018 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1234380005019 potential RNA of insufficient length (23S ribosomal RNA) 1234380005020 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1234380005021 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1234380005022 active site 1234380005023 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 1234380005024 generic binding surface I; other site 1234380005025 generic binding surface II; other site 1234380005026 DNA Polymerase Y-family; Region: PolY_like; cd03468 1234380005027 active site 1234380005028 DNA binding site [nucleotide binding] 1234380005029 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1234380005030 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1234380005031 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1234380005032 catalytic triad [active] 1234380005033 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1234380005034 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1234380005035 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 1234380005036 dimer interface [polypeptide binding]; other site 1234380005037 conserved gate region; other site 1234380005038 putative PBP binding loops; other site 1234380005039 ABC-ATPase subunit interface; other site 1234380005040 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380005041 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 1234380005042 dimer interface [polypeptide binding]; other site 1234380005043 conserved gate region; other site 1234380005044 putative PBP binding loops; other site 1234380005045 ABC-ATPase subunit interface; other site 1234380005046 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1234380005047 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1234380005048 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 1234380005049 catalytic triad [active] 1234380005050 CH-type (Chalaropsis-type) lysozymes represent one of four functionally-defined classes of peptidoglycan hydrolases (also referred to as endo-N-acetylmuramidases) that cleave bacterial cell wall peptidoglycans. CH-type lysozymes exhibit both lysozyme; Region: GH25_CH-type; cd06412 1234380005051 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1234380005052 active site 1234380005053 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1234380005054 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 1234380005055 active site 1234380005056 catalytic triad [active] 1234380005057 oxyanion hole [active] 1234380005058 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 1234380005059 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1234380005060 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1234380005061 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1234380005062 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 1234380005063 putative active site [active] 1234380005064 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1234380005065 DNA polymerase IV; Provisional; Region: PRK03348 1234380005066 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1234380005067 active site 1234380005068 DNA binding site [nucleotide binding] 1234380005069 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1234380005070 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 1234380005071 folate binding site [chemical binding]; other site 1234380005072 NADP+ binding site [chemical binding]; other site 1234380005073 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1234380005074 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 1234380005075 dimerization interface [polypeptide binding]; other site 1234380005076 active site 1234380005077 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 1234380005078 active site 1234380005079 dimerization interface [polypeptide binding]; other site 1234380005080 ribonuclease PH; Reviewed; Region: rph; PRK00173 1234380005081 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1234380005082 hexamer interface [polypeptide binding]; other site 1234380005083 active site 1234380005084 glutamate racemase; Provisional; Region: PRK00865 1234380005085 FeoA domain; Region: FeoA; pfam04023 1234380005086 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1234380005087 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1234380005088 G1 box; other site 1234380005089 GTP/Mg2+ binding site [chemical binding]; other site 1234380005090 Switch I region; other site 1234380005091 G2 box; other site 1234380005092 G3 box; other site 1234380005093 Switch II region; other site 1234380005094 G4 box; other site 1234380005095 G5 box; other site 1234380005096 Nucleoside recognition; Region: Gate; pfam07670 1234380005097 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1234380005098 Nucleoside recognition; Region: Gate; pfam07670 1234380005099 NifU-like domain; Region: NifU; cl00484 1234380005100 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 1234380005101 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1234380005102 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1234380005103 active site 1234380005104 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 1234380005105 IHF dimer interface [polypeptide binding]; other site 1234380005106 IHF - DNA interface [nucleotide binding]; other site 1234380005107 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1234380005108 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1234380005109 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 1234380005110 RDD family; Region: RDD; pfam06271 1234380005111 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 1234380005112 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1234380005113 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 1234380005114 trimer interface [polypeptide binding]; other site 1234380005115 active site 1234380005116 dimer interface [polypeptide binding]; other site 1234380005117 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1234380005118 Cation efflux family; Region: Cation_efflux; pfam01545 1234380005119 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 1234380005120 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 1234380005121 Trm112p-like protein; Region: Trm112p; cl01066 1234380005122 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 1234380005123 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 1234380005124 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit [DNA replication, recombination, and repair]; Region: GyrA; COG0188 1234380005125 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1234380005126 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 1234380005127 active site 1234380005128 Transcription factor WhiB; Region: Whib; pfam02467 1234380005129 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1234380005130 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1234380005131 Substrate binding site; other site 1234380005132 TIGR03089 family protein; Region: TIGR03089 1234380005133 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1234380005134 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 1234380005135 Ligand binding site; other site 1234380005136 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 1234380005137 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 1234380005138 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1234380005139 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1234380005140 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1234380005141 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1234380005142 AIR carboxylase; Region: AIRC; pfam00731 1234380005143 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1234380005144 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1234380005145 NAD binding site [chemical binding]; other site 1234380005146 ATP-grasp domain; Region: ATP-grasp; pfam02222 1234380005147 Bacterial PH domain; Region: DUF304; cl01348 1234380005148 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1234380005149 active site pocket [active] 1234380005150 oxyanion hole [active] 1234380005151 catalytic triad [active] 1234380005152 active site nucleophile [active] 1234380005153 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1234380005154 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1234380005155 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1234380005156 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1234380005157 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1234380005158 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 1234380005159 Maf-like protein; Region: Maf; pfam02545 1234380005160 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 1234380005161 active site 1234380005162 dimer interface [polypeptide binding]; other site 1234380005163 short chain dehydrogenase; Provisional; Region: PRK08219 1234380005164 classical (c) SDRs; Region: SDR_c; cd05233 1234380005165 NAD(P) binding site [chemical binding]; other site 1234380005166 active site 1234380005167 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 1234380005168 dimer interface [polypeptide binding]; other site 1234380005169 substrate binding site [chemical binding]; other site 1234380005170 ATP binding site [chemical binding]; other site 1234380005171 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1234380005172 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 1234380005173 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1234380005174 TQXA domain; Region: TQXA_dom; TIGR03934 1234380005175 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1234380005176 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1234380005177 oligomer interface [polypeptide binding]; other site 1234380005178 metal binding site [ion binding]; metal-binding site 1234380005179 metal binding site [ion binding]; metal-binding site 1234380005180 putative Cl binding site [ion binding]; other site 1234380005181 aspartate ring; other site 1234380005182 basic sphincter; other site 1234380005183 hydrophobic gate; other site 1234380005184 periplasmic entrance; other site 1234380005185 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1234380005186 nudix motif; other site 1234380005187 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1234380005188 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1234380005189 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1234380005190 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1234380005191 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 1234380005192 carboxyltransferase (CT) interaction site; other site 1234380005193 biotinylation site [posttranslational modification]; other site 1234380005194 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 1234380005195 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380005196 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1234380005197 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1234380005198 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1234380005199 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1234380005200 active site 1234380005201 substrate binding site [chemical binding]; other site 1234380005202 metal binding site [ion binding]; metal-binding site 1234380005203 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1234380005204 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1234380005205 acyl-activating enzyme (AAE) consensus motif; other site 1234380005206 AMP binding site [chemical binding]; other site 1234380005207 active site 1234380005208 CoA binding site [chemical binding]; other site 1234380005209 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1234380005210 active site 1234380005211 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 1234380005212 putative substrate translocation pore; other site 1234380005213 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 1234380005214 active site 1234380005215 catalytic site [active] 1234380005216 substrate binding site [chemical binding]; other site 1234380005217 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 1234380005218 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1234380005219 active site 1234380005220 HIGH motif; other site 1234380005221 KMSKS motif; other site 1234380005222 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1234380005223 tRNA binding surface [nucleotide binding]; other site 1234380005224 anticodon binding site; other site 1234380005225 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1234380005226 RNA/DNA hybrid binding site [nucleotide binding]; other site 1234380005227 active site 1234380005228 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 1234380005229 active site 1234380005230 catalytic motif [active] 1234380005231 Zn binding site [ion binding]; other site 1234380005232 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1234380005233 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1234380005234 TM-ABC transporter signature motif; other site 1234380005235 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1234380005236 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1234380005237 TM-ABC transporter signature motif; other site 1234380005238 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1234380005239 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1234380005240 Walker A/P-loop; other site 1234380005241 ATP binding site [chemical binding]; other site 1234380005242 Q-loop/lid; other site 1234380005243 ABC transporter signature motif; other site 1234380005244 Walker B; other site 1234380005245 D-loop; other site 1234380005246 H-loop/switch region; other site 1234380005247 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1234380005248 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1234380005249 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1234380005250 ligand binding site [chemical binding]; other site 1234380005251 Phosphotransferase enzyme family; Region: APH; pfam01636 1234380005252 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1234380005253 Domain of unknown function DUF21; Region: DUF21; pfam01595 1234380005254 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 1234380005255 Transporter associated domain; Region: CorC_HlyC; smart01091 1234380005256 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1234380005257 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1234380005258 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1234380005259 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1234380005260 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1234380005261 active site 1234380005262 substrate binding site [chemical binding]; other site 1234380005263 cosubstrate binding site; other site 1234380005264 catalytic site [active] 1234380005265 malate dehydrogenase; Provisional; Region: PRK05442 1234380005266 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1234380005267 NAD(P) binding site [chemical binding]; other site 1234380005268 dimer interface [polypeptide binding]; other site 1234380005269 malate binding site [chemical binding]; other site 1234380005270 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 1234380005271 putative catalytic cysteine [active] 1234380005272 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 1234380005273 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 1234380005274 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1234380005275 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1234380005276 homodimer interface [polypeptide binding]; other site 1234380005277 NADP binding site [chemical binding]; other site 1234380005278 substrate binding site [chemical binding]; other site 1234380005279 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1234380005280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1234380005281 catalytic residue [active] 1234380005282 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1234380005283 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1234380005284 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 1234380005285 purine monophosphate binding site [chemical binding]; other site 1234380005286 dimer interface [polypeptide binding]; other site 1234380005287 putative catalytic residues [active] 1234380005288 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1234380005289 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1234380005290 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1234380005291 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1234380005292 active site 1234380005293 cosubstrate binding site; other site 1234380005294 substrate binding site [chemical binding]; other site 1234380005295 catalytic site [active] 1234380005296 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 1234380005297 homopentamer interface [polypeptide binding]; other site 1234380005298 active site 1234380005299 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1234380005300 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1234380005301 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 1234380005302 dimerization interface [polypeptide binding]; other site 1234380005303 active site 1234380005304 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1234380005305 Lumazine binding domain; Region: Lum_binding; pfam00677 1234380005306 Lumazine binding domain; Region: Lum_binding; pfam00677 1234380005307 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 1234380005308 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1234380005309 catalytic motif [active] 1234380005310 Zn binding site [ion binding]; other site 1234380005311 RibD C-terminal domain; Region: RibD_C; cl17279 1234380005312 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1234380005313 CoA binding domain; Region: CoA_binding; smart00881 1234380005314 CoA-ligase; Region: Ligase_CoA; pfam00549 1234380005315 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1234380005316 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1234380005317 CoA-ligase; Region: Ligase_CoA; pfam00549 1234380005318 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1234380005319 Part of AAA domain; Region: AAA_19; pfam13245 1234380005320 Family description; Region: UvrD_C_2; pfam13538 1234380005321 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1234380005322 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1234380005323 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1234380005324 Walker A/P-loop; other site 1234380005325 ATP binding site [chemical binding]; other site 1234380005326 Q-loop/lid; other site 1234380005327 ABC transporter signature motif; other site 1234380005328 Walker B; other site 1234380005329 D-loop; other site 1234380005330 H-loop/switch region; other site 1234380005331 NIL domain; Region: NIL; pfam09383 1234380005332 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 1234380005333 ABC-ATPase subunit interface; other site 1234380005334 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1234380005335 PLD-like domain; Region: PLDc_2; pfam13091 1234380005336 putative active site [active] 1234380005337 catalytic site [active] 1234380005338 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1234380005339 PLD-like domain; Region: PLDc_2; pfam13091 1234380005340 putative active site [active] 1234380005341 catalytic site [active] 1234380005342 PspC domain; Region: PspC; pfam04024 1234380005343 GMP synthase; Reviewed; Region: guaA; PRK00074 1234380005344 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1234380005345 AMP/PPi binding site [chemical binding]; other site 1234380005346 candidate oxyanion hole; other site 1234380005347 catalytic triad [active] 1234380005348 potential glutamine specificity residues [chemical binding]; other site 1234380005349 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 1234380005350 ATP Binding subdomain [chemical binding]; other site 1234380005351 Ligand Binding sites [chemical binding]; other site 1234380005352 Dimerization subdomain; other site 1234380005353 serine O-acetyltransferase; Region: cysE; TIGR01172 1234380005354 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 1234380005355 trimer interface [polypeptide binding]; other site 1234380005356 active site 1234380005357 substrate binding site [chemical binding]; other site 1234380005358 CoA binding site [chemical binding]; other site 1234380005359 chorismate mutase; Provisional; Region: PRK09239 1234380005360 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 1234380005361 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 1234380005362 phosphate binding site [ion binding]; other site 1234380005363 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1234380005364 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 1234380005365 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 1234380005366 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 1234380005367 active site 1234380005368 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 1234380005369 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1234380005370 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1234380005371 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1234380005372 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 1234380005373 ring oligomerisation interface [polypeptide binding]; other site 1234380005374 ATP/Mg binding site [chemical binding]; other site 1234380005375 stacking interactions; other site 1234380005376 hinge regions; other site 1234380005377 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 1234380005378 oligomerisation interface [polypeptide binding]; other site 1234380005379 mobile loop; other site 1234380005380 roof hairpin; other site 1234380005381 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1234380005382 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1234380005383 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1234380005384 Walker A/P-loop; other site 1234380005385 ATP binding site [chemical binding]; other site 1234380005386 Q-loop/lid; other site 1234380005387 ABC transporter signature motif; other site 1234380005388 Walker B; other site 1234380005389 D-loop; other site 1234380005390 H-loop/switch region; other site 1234380005391 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1234380005392 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 1234380005393 ABC-ATPase subunit interface; other site 1234380005394 dimer interface [polypeptide binding]; other site 1234380005395 putative PBP binding regions; other site 1234380005396 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1234380005397 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 1234380005398 intersubunit interface [polypeptide binding]; other site 1234380005399 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 1234380005400 putative active site [active] 1234380005401 nucleotide binding site [chemical binding]; other site 1234380005402 nudix motif; other site 1234380005403 putative metal binding site [ion binding]; other site 1234380005404 UGMP family protein; Validated; Region: PRK09604 1234380005405 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1234380005406 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1234380005407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1234380005408 Coenzyme A binding pocket [chemical binding]; other site 1234380005409 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1234380005410 Glycoprotease family; Region: Peptidase_M22; pfam00814 1234380005411 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1234380005412 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1234380005413 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 1234380005414 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1234380005415 ATP binding site [chemical binding]; other site 1234380005416 Mg++ binding site [ion binding]; other site 1234380005417 motif III; other site 1234380005418 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 1234380005419 nucleotide binding region [chemical binding]; other site 1234380005420 ATP-binding site [chemical binding]; other site 1234380005421 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380005422 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380005423 Walker A/P-loop; other site 1234380005424 ATP binding site [chemical binding]; other site 1234380005425 Q-loop/lid; other site 1234380005426 ABC transporter signature motif; other site 1234380005427 Walker B; other site 1234380005428 D-loop; other site 1234380005429 H-loop/switch region; other site 1234380005430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1234380005431 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1234380005432 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1234380005433 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 1234380005434 putative substrate binding site [chemical binding]; other site 1234380005435 putative ATP binding site [chemical binding]; other site 1234380005436 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1234380005437 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1234380005438 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 1234380005439 glutaminase active site [active] 1234380005440 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 1234380005441 dimer interface [polypeptide binding]; other site 1234380005442 active site 1234380005443 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 1234380005444 dimer interface [polypeptide binding]; other site 1234380005445 active site 1234380005446 Lipase (class 2); Region: Lipase_2; pfam01674 1234380005447 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1234380005448 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1234380005449 Lipase (class 2); Region: Lipase_2; pfam01674 1234380005450 pantothenate kinase; Provisional; Region: PRK05439 1234380005451 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 1234380005452 ATP-binding site [chemical binding]; other site 1234380005453 CoA-binding site [chemical binding]; other site 1234380005454 Mg2+-binding site [ion binding]; other site 1234380005455 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 1234380005456 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 1234380005457 active site 1234380005458 substrate binding site [chemical binding]; other site 1234380005459 metal binding site [ion binding]; metal-binding site 1234380005460 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1234380005461 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 1234380005462 23S rRNA interface [nucleotide binding]; other site 1234380005463 L3 interface [polypeptide binding]; other site 1234380005464 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 1234380005465 Glycosyl hydrolase family 85; Region: Glyco_hydro_85; pfam03644 1234380005466 active site 1234380005467 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 1234380005468 S-adenosylmethionine binding site [chemical binding]; other site 1234380005469 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1234380005470 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1234380005471 dimerization interface 3.5A [polypeptide binding]; other site 1234380005472 active site 1234380005473 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 1234380005474 S-adenosylmethionine binding site [chemical binding]; other site 1234380005475 Cobalt transport protein; Region: CbiQ; cl00463 1234380005476 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1234380005477 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1234380005478 Walker A/P-loop; other site 1234380005479 ATP binding site [chemical binding]; other site 1234380005480 Q-loop/lid; other site 1234380005481 ABC transporter signature motif; other site 1234380005482 Walker B; other site 1234380005483 D-loop; other site 1234380005484 H-loop/switch region; other site 1234380005485 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1234380005486 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380005487 Walker A/P-loop; other site 1234380005488 ATP binding site [chemical binding]; other site 1234380005489 Q-loop/lid; other site 1234380005490 ABC transporter signature motif; other site 1234380005491 Walker B; other site 1234380005492 D-loop; other site 1234380005493 H-loop/switch region; other site 1234380005494 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1234380005495 classical (c) SDRs; Region: SDR_c; cd05233 1234380005496 NAD(P) binding site [chemical binding]; other site 1234380005497 active site 1234380005498 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1234380005499 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1234380005500 Walker A/P-loop; other site 1234380005501 ATP binding site [chemical binding]; other site 1234380005502 Q-loop/lid; other site 1234380005503 ABC transporter signature motif; other site 1234380005504 Walker B; other site 1234380005505 D-loop; other site 1234380005506 H-loop/switch region; other site 1234380005507 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1234380005508 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1234380005509 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1234380005510 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 1234380005511 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1234380005512 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 1234380005513 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1234380005514 putative substrate translocation pore; other site 1234380005515 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1234380005516 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1234380005517 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1234380005518 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1234380005519 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1234380005520 alphaNTD homodimer interface [polypeptide binding]; other site 1234380005521 alphaNTD - beta interaction site [polypeptide binding]; other site 1234380005522 alphaNTD - beta' interaction site [polypeptide binding]; other site 1234380005523 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1234380005524 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1234380005525 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1234380005526 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 1234380005527 RNA binding surface [nucleotide binding]; other site 1234380005528 30S ribosomal protein S11; Validated; Region: PRK05309 1234380005529 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1234380005530 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1234380005531 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1234380005532 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 1234380005533 rRNA binding site [nucleotide binding]; other site 1234380005534 predicted 30S ribosome binding site; other site 1234380005535 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 1234380005536 active site 1234380005537 adenylate kinase; Reviewed; Region: adk; PRK00279 1234380005538 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 1234380005539 AMP-binding site [chemical binding]; other site 1234380005540 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1234380005541 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1234380005542 SecY translocase; Region: SecY; pfam00344 1234380005543 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1234380005544 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 1234380005545 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1234380005546 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1234380005547 putative active site [active] 1234380005548 putative metal binding site [ion binding]; other site 1234380005549 catalytic site [active] 1234380005550 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1234380005551 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 1234380005552 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1234380005553 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1234380005554 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 1234380005555 23S rRNA binding site [nucleotide binding]; other site 1234380005556 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1234380005557 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1234380005558 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1234380005559 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 1234380005560 23S rRNA interface [nucleotide binding]; other site 1234380005561 5S rRNA interface [nucleotide binding]; other site 1234380005562 L27 interface [polypeptide binding]; other site 1234380005563 L5 interface [polypeptide binding]; other site 1234380005564 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1234380005565 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1234380005566 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1234380005567 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1234380005568 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1234380005569 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1234380005570 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1234380005571 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1234380005572 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1234380005573 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1234380005574 RNA binding site [nucleotide binding]; other site 1234380005575 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1234380005576 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1234380005577 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 1234380005578 23S rRNA interface [nucleotide binding]; other site 1234380005579 putative translocon interaction site; other site 1234380005580 signal recognition particle (SRP54) interaction site; other site 1234380005581 L23 interface [polypeptide binding]; other site 1234380005582 trigger factor interaction site; other site 1234380005583 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 1234380005584 23S rRNA interface [nucleotide binding]; other site 1234380005585 5S rRNA interface [nucleotide binding]; other site 1234380005586 putative antibiotic binding site [chemical binding]; other site 1234380005587 L25 interface [polypeptide binding]; other site 1234380005588 L27 interface [polypeptide binding]; other site 1234380005589 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1234380005590 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 1234380005591 G-X-X-G motif; other site 1234380005592 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1234380005593 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 1234380005594 putative translocon binding site; other site 1234380005595 protein-rRNA interface [nucleotide binding]; other site 1234380005596 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1234380005597 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1234380005598 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1234380005599 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1234380005600 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1234380005601 50S ribosomal protein L4; Provisional; Region: rplD; PRK14547 1234380005602 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1234380005603 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1234380005604 6-carboxyhexanoate--CoA ligase; Region: BioW; pfam03744 1234380005605 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1234380005606 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1234380005607 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1234380005608 catalytic residue [active] 1234380005609 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1234380005610 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1234380005611 HIGH motif; other site 1234380005612 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1234380005613 active site 1234380005614 KMSKS motif; other site 1234380005615 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1234380005616 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1234380005617 active site 1234380005618 HIGH motif; other site 1234380005619 nucleotide binding site [chemical binding]; other site 1234380005620 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1234380005621 active site 1234380005622 KMSKS motif; other site 1234380005623 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1234380005624 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 1234380005625 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1234380005626 active site 1234380005627 metal binding site [ion binding]; metal-binding site 1234380005628 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1234380005629 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 1234380005630 elongation factor Tu; Reviewed; Region: PRK00049 1234380005631 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1234380005632 G1 box; other site 1234380005633 GEF interaction site [polypeptide binding]; other site 1234380005634 GTP/Mg2+ binding site [chemical binding]; other site 1234380005635 Switch I region; other site 1234380005636 G2 box; other site 1234380005637 G3 box; other site 1234380005638 Switch II region; other site 1234380005639 G4 box; other site 1234380005640 G5 box; other site 1234380005641 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 1234380005642 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 1234380005643 Antibiotic Binding Site [chemical binding]; other site 1234380005644 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380005645 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380005646 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380005647 elongation factor G; Reviewed; Region: PRK00007 1234380005648 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1234380005649 G1 box; other site 1234380005650 putative GEF interaction site [polypeptide binding]; other site 1234380005651 GTP/Mg2+ binding site [chemical binding]; other site 1234380005652 Switch I region; other site 1234380005653 G2 box; other site 1234380005654 G3 box; other site 1234380005655 Switch II region; other site 1234380005656 G4 box; other site 1234380005657 G5 box; other site 1234380005658 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 1234380005659 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 1234380005660 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 1234380005661 30S ribosomal protein S7; Validated; Region: PRK05302 1234380005662 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 1234380005663 S17 interaction site [polypeptide binding]; other site 1234380005664 S8 interaction site; other site 1234380005665 16S rRNA interaction site [nucleotide binding]; other site 1234380005666 streptomycin interaction site [chemical binding]; other site 1234380005667 23S rRNA interaction site [nucleotide binding]; other site 1234380005668 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1234380005669 Filamin/ABP280 repeat; Region: Filamin; pfam00630 1234380005670 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 1234380005671 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1234380005672 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 1234380005673 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1234380005674 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 1234380005675 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1234380005676 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1234380005677 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1234380005678 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1234380005679 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1234380005680 G-loop; other site 1234380005681 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1234380005682 DNA binding site [nucleotide binding] 1234380005683 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1234380005684 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1234380005685 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 1234380005686 RPB12 interaction site [polypeptide binding]; other site 1234380005687 RPB1 interaction site [polypeptide binding]; other site 1234380005688 RPB10 interaction site [polypeptide binding]; other site 1234380005689 RPB11 interaction site [polypeptide binding]; other site 1234380005690 RPB3 interaction site [polypeptide binding]; other site 1234380005691 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 1234380005692 core dimer interface [polypeptide binding]; other site 1234380005693 peripheral dimer interface [polypeptide binding]; other site 1234380005694 L10 interface [polypeptide binding]; other site 1234380005695 L11 interface [polypeptide binding]; other site 1234380005696 putative EF-Tu interaction site [polypeptide binding]; other site 1234380005697 putative EF-G interaction site [polypeptide binding]; other site 1234380005698 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 1234380005699 23S rRNA interface [nucleotide binding]; other site 1234380005700 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1234380005701 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 1234380005702 mRNA/rRNA interface [nucleotide binding]; other site 1234380005703 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1234380005704 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 1234380005705 23S rRNA interface [nucleotide binding]; other site 1234380005706 putative thiostrepton binding site; other site 1234380005707 L7/L12 interface [polypeptide binding]; other site 1234380005708 L25 interface [polypeptide binding]; other site 1234380005709 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1234380005710 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1234380005711 putative homodimer interface [polypeptide binding]; other site 1234380005712 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1234380005713 heterodimer interface [polypeptide binding]; other site 1234380005714 homodimer interface [polypeptide binding]; other site 1234380005715 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1234380005716 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 1234380005717 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 1234380005718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380005719 homodimer interface [polypeptide binding]; other site 1234380005720 catalytic residue [active] 1234380005721 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 1234380005722 FAD binding domain; Region: FAD_binding_4; pfam01565 1234380005723 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1234380005724 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 1234380005725 active site 1234380005726 catalytic site [active] 1234380005727 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1234380005728 active site 1234380005729 catalytic site [active] 1234380005730 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1234380005731 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1234380005732 putative active site [active] 1234380005733 putative catalytic site [active] 1234380005734 putative DNA binding site [nucleotide binding]; other site 1234380005735 putative phosphate binding site [ion binding]; other site 1234380005736 metal binding site A [ion binding]; metal-binding site 1234380005737 putative AP binding site [nucleotide binding]; other site 1234380005738 putative metal binding site B [ion binding]; other site 1234380005739 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 1234380005740 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1234380005741 substrate binding site [chemical binding]; other site 1234380005742 oxyanion hole (OAH) forming residues; other site 1234380005743 trimer interface [polypeptide binding]; other site 1234380005744 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1234380005745 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 1234380005746 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1234380005747 4Fe-4S binding domain; Region: Fer4; cl02805 1234380005748 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 1234380005749 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 1234380005750 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 1234380005751 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1234380005752 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 1234380005753 dimer interface [polypeptide binding]; other site 1234380005754 PYR/PP interface [polypeptide binding]; other site 1234380005755 TPP binding site [chemical binding]; other site 1234380005756 substrate binding site [chemical binding]; other site 1234380005757 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 1234380005758 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 1234380005759 TPP-binding site [chemical binding]; other site 1234380005760 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 1234380005761 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1234380005762 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 1234380005763 active site 1234380005764 catalytic triad [active] 1234380005765 oxyanion hole [active] 1234380005766 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 1234380005767 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1234380005768 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1234380005769 active site 1234380005770 Zn binding site [ion binding]; other site 1234380005771 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380005772 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 1234380005773 Walker A/P-loop; other site 1234380005774 ATP binding site [chemical binding]; other site 1234380005775 Q-loop/lid; other site 1234380005776 ABC transporter signature motif; other site 1234380005777 Walker B; other site 1234380005778 D-loop; other site 1234380005779 H-loop/switch region; other site 1234380005780 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1234380005781 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1234380005782 Walker A/P-loop; other site 1234380005783 ATP binding site [chemical binding]; other site 1234380005784 Q-loop/lid; other site 1234380005785 ABC transporter signature motif; other site 1234380005786 Walker B; other site 1234380005787 D-loop; other site 1234380005788 H-loop/switch region; other site 1234380005789 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1234380005790 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1234380005791 active site 1234380005792 SAM binding site [chemical binding]; other site 1234380005793 homodimer interface [polypeptide binding]; other site 1234380005794 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1234380005795 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1234380005796 substrate binding pocket [chemical binding]; other site 1234380005797 chain length determination region; other site 1234380005798 substrate-Mg2+ binding site; other site 1234380005799 catalytic residues [active] 1234380005800 aspartate-rich region 1; other site 1234380005801 active site lid residues [active] 1234380005802 aspartate-rich region 2; other site 1234380005803 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1234380005804 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1234380005805 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1234380005806 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1234380005807 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1234380005808 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1234380005809 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1234380005810 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1234380005811 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1234380005812 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1234380005813 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1234380005814 4Fe-4S binding domain; Region: Fer4; pfam00037 1234380005815 4Fe-4S binding domain; Region: Fer4; pfam00037 1234380005816 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1234380005817 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1234380005818 NADH dehydrogenase subunit G; Validated; Region: PRK07860 1234380005819 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 1234380005820 catalytic loop [active] 1234380005821 iron binding site [ion binding]; other site 1234380005822 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1234380005823 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 1234380005824 [4Fe-4S] binding site [ion binding]; other site 1234380005825 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1234380005826 molybdopterin cofactor binding site; other site 1234380005827 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 1234380005828 SLBB domain; Region: SLBB; pfam10531 1234380005829 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1234380005830 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1234380005831 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 1234380005832 putative dimer interface [polypeptide binding]; other site 1234380005833 [2Fe-2S] cluster binding site [ion binding]; other site 1234380005834 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1234380005835 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1234380005836 NADH dehydrogenase subunit C; Provisional; Region: PRK07785 1234380005837 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1234380005838 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1234380005839 NADH dehydrogenase subunit A; Validated; Region: PRK07928 1234380005840 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1234380005841 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1234380005842 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1234380005843 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1234380005844 Walker A/P-loop; other site 1234380005845 ATP binding site [chemical binding]; other site 1234380005846 Q-loop/lid; other site 1234380005847 ABC transporter signature motif; other site 1234380005848 Walker B; other site 1234380005849 D-loop; other site 1234380005850 H-loop/switch region; other site 1234380005851 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1234380005852 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 1234380005853 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1234380005854 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380005855 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1234380005856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380005857 Walker A/P-loop; other site 1234380005858 ATP binding site [chemical binding]; other site 1234380005859 Q-loop/lid; other site 1234380005860 ABC transporter signature motif; other site 1234380005861 Walker B; other site 1234380005862 D-loop; other site 1234380005863 H-loop/switch region; other site 1234380005864 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380005865 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380005866 Walker A/P-loop; other site 1234380005867 ATP binding site [chemical binding]; other site 1234380005868 Q-loop/lid; other site 1234380005869 ABC transporter signature motif; other site 1234380005870 Walker B; other site 1234380005871 D-loop; other site 1234380005872 H-loop/switch region; other site 1234380005873 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1234380005874 UbiA prenyltransferase family; Region: UbiA; pfam01040 1234380005875 H+ Antiporter protein; Region: 2A0121; TIGR00900 1234380005876 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 1234380005877 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 1234380005878 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1234380005879 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1234380005880 DAK2 domain; Region: Dak2; cl03685 1234380005881 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1234380005882 active pocket/dimerization site; other site 1234380005883 active site 1234380005884 phosphorylation site [posttranslational modification] 1234380005885 Deoxycytidylate deaminase [Nucleotide transport and metabolism]; Region: ComEB; COG2131 1234380005886 active site 1234380005887 Zn binding site [ion binding]; other site 1234380005888 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1234380005889 Cation efflux family; Region: Cation_efflux; cl00316 1234380005890 A subgroup of L-lactate dehydrogenases; Region: LDH_3; cd05290 1234380005891 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1234380005892 NAD binding site [chemical binding]; other site 1234380005893 dimer interface [polypeptide binding]; other site 1234380005894 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1234380005895 substrate binding site [chemical binding]; other site 1234380005896 Patatin-like phospholipase; Region: Patatin; pfam01734 1234380005897 active site 1234380005898 nucleophile elbow; other site 1234380005899 Patatin-like phospholipase; Region: Patatin; pfam01734 1234380005900 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 1234380005901 UMP phosphatase; Provisional; Region: PRK10444 1234380005902 active site 1234380005903 motif I; other site 1234380005904 motif II; other site 1234380005905 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 1234380005906 Right handed beta helix region; Region: Beta_helix; pfam13229 1234380005907 Right handed beta helix region; Region: Beta_helix; pfam13229 1234380005908 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1234380005909 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1234380005910 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1234380005911 potential frameshift: common BLAST hit: gi|295131485|ref|YP_003582148.1| Neuraminidase NanP 1234380005912 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 1234380005913 dimer interface [polypeptide binding]; other site 1234380005914 conserved gate region; other site 1234380005915 putative PBP binding loops; other site 1234380005916 ABC-ATPase subunit interface; other site 1234380005917 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380005918 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 1234380005919 dimer interface [polypeptide binding]; other site 1234380005920 conserved gate region; other site 1234380005921 putative PBP binding loops; other site 1234380005922 ABC-ATPase subunit interface; other site 1234380005923 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1234380005924 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1234380005925 Bacterial SH3 domain; Region: SH3_3; pfam08239 1234380005926 Bacterial SH3 domain; Region: SH3_3; cl17532 1234380005927 Bacterial SH3 domain; Region: SH3_3; cl17532 1234380005928 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1234380005929 NlpC/P60 family; Region: NLPC_P60; cl17555 1234380005930 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380005931 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 1234380005932 dimer interface [polypeptide binding]; other site 1234380005933 conserved gate region; other site 1234380005934 putative PBP binding loops; other site 1234380005935 ABC-ATPase subunit interface; other site 1234380005936 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 1234380005937 dimer interface [polypeptide binding]; other site 1234380005938 conserved gate region; other site 1234380005939 putative PBP binding loops; other site 1234380005940 ABC-ATPase subunit interface; other site 1234380005941 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1234380005942 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1234380005943 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1234380005944 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 1234380005945 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1234380005946 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 1234380005947 dimerization interface [polypeptide binding]; other site 1234380005948 putative ATP binding site [chemical binding]; other site 1234380005949 amidophosphoribosyltransferase; Provisional; Region: PRK07847 1234380005950 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 1234380005951 active site 1234380005952 tetramer interface [polypeptide binding]; other site 1234380005953 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380005954 active site 1234380005955 hypothetical protein; Provisional; Region: PRK07907 1234380005956 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 1234380005957 active site 1234380005958 metal binding site [ion binding]; metal-binding site 1234380005959 dimer interface [polypeptide binding]; other site 1234380005960 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1234380005961 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 1234380005962 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1234380005963 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1234380005964 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1234380005965 glutamine binding [chemical binding]; other site 1234380005966 catalytic triad [active] 1234380005967 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1234380005968 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1234380005969 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1234380005970 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1234380005971 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 1234380005972 dimerization interface [polypeptide binding]; other site 1234380005973 ATP binding site [chemical binding]; other site 1234380005974 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1234380005975 dimerization interface [polypeptide binding]; other site 1234380005976 ATP binding site [chemical binding]; other site 1234380005977 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 1234380005978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1234380005979 putative substrate translocation pore; other site 1234380005980 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 1234380005981 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 1234380005982 Zn binding site [ion binding]; other site 1234380005983 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1234380005984 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1234380005985 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380005986 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1234380005987 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 1234380005988 active site 1234380005989 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1234380005990 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1234380005991 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 1234380005992 active site 1234380005993 catalytic triad [active] 1234380005994 oxyanion hole [active] 1234380005995 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 1234380005996 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1234380005997 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1234380005998 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1234380005999 putative active site [active] 1234380006000 catalytic triad [active] 1234380006001 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1234380006002 ATP binding site [chemical binding]; other site 1234380006003 active site 1234380006004 substrate binding site [chemical binding]; other site 1234380006005 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1234380006006 peroxiredoxin; Region: AhpC; TIGR03137 1234380006007 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 1234380006008 dimer interface [polypeptide binding]; other site 1234380006009 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1234380006010 catalytic triad [active] 1234380006011 peroxidatic and resolving cysteines [active] 1234380006012 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1234380006013 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 1234380006014 catalytic residue [active] 1234380006015 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 1234380006016 catalytic residues [active] 1234380006017 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1234380006018 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380006019 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1234380006020 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1234380006021 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 1234380006022 dimerization interface [polypeptide binding]; other site 1234380006023 adenylosuccinate lyase; Region: purB; TIGR00928 1234380006024 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1234380006025 tetramer interface [polypeptide binding]; other site 1234380006026 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1234380006027 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1234380006028 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1234380006029 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1234380006030 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 1234380006031 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1234380006032 GDP-binding site [chemical binding]; other site 1234380006033 ACT binding site; other site 1234380006034 IMP binding site; other site 1234380006035 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1234380006036 Coenzyme A binding pocket [chemical binding]; other site 1234380006037 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1234380006038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1234380006039 DNA-binding site [nucleotide binding]; DNA binding site 1234380006040 FCD domain; Region: FCD; pfam07729 1234380006041 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 1234380006042 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1234380006043 putative active site cavity [active] 1234380006044 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1234380006045 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1234380006046 inhibitor site; inhibition site 1234380006047 active site 1234380006048 dimer interface [polypeptide binding]; other site 1234380006049 catalytic residue [active] 1234380006050 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1234380006051 putative sialic acid transporter; Provisional; Region: PRK03893 1234380006052 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 1234380006053 putative substrate translocation pore; other site 1234380006054 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 1234380006055 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 1234380006056 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1234380006057 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 1234380006058 G1 box; other site 1234380006059 putative GEF interaction site [polypeptide binding]; other site 1234380006060 GTP/Mg2+ binding site [chemical binding]; other site 1234380006061 Switch I region; other site 1234380006062 G2 box; other site 1234380006063 G3 box; other site 1234380006064 Switch II region; other site 1234380006065 G4 box; other site 1234380006066 G5 box; other site 1234380006067 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 1234380006068 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 1234380006069 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1234380006070 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 1234380006071 carboxyltransferase (CT) interaction site; other site 1234380006072 biotinylation site [posttranslational modification]; other site 1234380006073 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1234380006074 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1234380006075 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1234380006076 oxaloacetate decarboxylase; Provisional; Region: PRK12330 1234380006077 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1234380006078 active site 1234380006079 catalytic residues [active] 1234380006080 metal binding site [ion binding]; metal-binding site 1234380006081 homodimer binding site [polypeptide binding]; other site 1234380006082 PAS domain; Region: PAS_9; pfam13426 1234380006083 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1234380006084 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1234380006085 active site 1234380006086 intersubunit interface [polypeptide binding]; other site 1234380006087 zinc binding site [ion binding]; other site 1234380006088 Na+ binding site [ion binding]; other site 1234380006089 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1234380006090 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1234380006091 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1234380006092 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 1234380006093 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1234380006094 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1234380006095 SEC-C motif; Region: SEC-C; pfam02810 1234380006096 hypothetical protein; Provisional; Region: PRK04233 1234380006097 benzoate transport; Region: 2A0115; TIGR00895 1234380006098 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 1234380006099 putative substrate translocation pore; other site 1234380006100 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 1234380006101 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1234380006102 Clp amino terminal domain; Region: Clp_N; pfam02861 1234380006103 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 1234380006104 Walker A motif; other site 1234380006105 ATP binding site [chemical binding]; other site 1234380006106 Walker B motif; other site 1234380006107 arginine finger; other site 1234380006108 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 1234380006109 Walker A motif; other site 1234380006110 ATP binding site [chemical binding]; other site 1234380006111 Walker B motif; other site 1234380006112 arginine finger; other site 1234380006113 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1234380006114 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1234380006115 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1234380006116 Eukaryotic phosphomannomutase; Region: PMM; cl17107 1234380006117 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 1234380006118 catalytic residue [active] 1234380006119 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1234380006120 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1234380006121 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1234380006122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1234380006123 Histidine kinase; Region: HisKA_3; pfam07730 1234380006124 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 1234380006125 ATP binding site [chemical binding]; other site 1234380006126 Mg2+ binding site [ion binding]; other site 1234380006127 G-X-G motif; other site 1234380006128 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1234380006129 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 1234380006130 active site 1234380006131 phosphorylation site [posttranslational modification] 1234380006132 intermolecular recognition site; other site 1234380006133 dimerization interface [polypeptide binding]; other site 1234380006134 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 1234380006135 DNA binding residues [nucleotide binding] 1234380006136 dimerization interface [polypeptide binding]; other site 1234380006137 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1234380006138 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1234380006139 Walker A/P-loop; other site 1234380006140 ATP binding site [chemical binding]; other site 1234380006141 Q-loop/lid; other site 1234380006142 ABC transporter signature motif; other site 1234380006143 Walker B; other site 1234380006144 D-loop; other site 1234380006145 H-loop/switch region; other site 1234380006146 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1234380006147 FtsX-like permease family; Region: FtsX; pfam02687 1234380006148 FtsX-like permease family; Region: FtsX; pfam02687 1234380006149 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 1234380006150 nudix motif; other site 1234380006151 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1234380006152 Predicted permease [General function prediction only]; Region: COG2985 1234380006153 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1234380006154 TrkA-C domain; Region: TrkA_C; pfam02080 1234380006155 TrkA-C domain; Region: TrkA_C; pfam02080 1234380006156 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 1234380006157 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1234380006158 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 1234380006159 putative NAD(P) binding site [chemical binding]; other site 1234380006160 catalytic Zn binding site [ion binding]; other site 1234380006161 structural Zn binding site [ion binding]; other site 1234380006162 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1234380006163 active site 1234380006164 catalytic triad [active] 1234380006165 oxyanion hole [active] 1234380006166 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1234380006167 DNA binding residues [nucleotide binding] 1234380006168 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1234380006169 putative dimer interface [polypeptide binding]; other site 1234380006170 chaperone protein DnaJ; Provisional; Region: PRK14295 1234380006171 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 1234380006172 HSP70 interaction site [polypeptide binding]; other site 1234380006173 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1234380006174 Zn binding sites [ion binding]; other site 1234380006175 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1234380006176 dimer interface [polypeptide binding]; other site 1234380006177 GrpE; Region: GrpE; pfam01025 1234380006178 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 1234380006179 dimer interface [polypeptide binding]; other site 1234380006180 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1234380006181 NAD-specific glutamate dehydrogenase; Region: NAD-GH; pfam10712 1234380006182 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1234380006183 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1234380006184 nucleotide binding site [chemical binding]; other site 1234380006185 NEF interaction site [polypeptide binding]; other site 1234380006186 SBD interface [polypeptide binding]; other site 1234380006187 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1234380006188 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1234380006189 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 1234380006190 active site 1234380006191 phosphorylation site [posttranslational modification] 1234380006192 intermolecular recognition site; other site 1234380006193 dimerization interface [polypeptide binding]; other site 1234380006194 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 1234380006195 DNA binding site [nucleotide binding] 1234380006196 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1234380006197 intersubunit interface [polypeptide binding]; other site 1234380006198 active site 1234380006199 catalytic residue [active] 1234380006200 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1; cd01653 1234380006201 conserved cys residue [active] 1234380006202 FHA domain; Region: FHA; pfam00498 1234380006203 phosphopeptide binding site; other site 1234380006204 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1234380006205 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1234380006206 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1234380006207 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1234380006208 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1234380006209 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1234380006210 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 1234380006211 S-adenosylmethionine binding site [chemical binding]; other site 1234380006212 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1234380006213 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1234380006214 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1234380006215 active site 1234380006216 catalytic residues [active] 1234380006217 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1234380006218 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1234380006219 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1234380006220 potential frameshift: common BLAST hit: gi|386070240|ref|YP_005985136.1| amidase 1234380006221 potential protein location (hypothetical protein PAC1_10490 [Propionibacterium acnes C1]) that overlaps RNA (tRNA-G) 1234380006222 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1234380006223 putative active site [active] 1234380006224 homotetrameric interface [polypeptide binding]; other site 1234380006225 metal binding site [ion binding]; metal-binding site 1234380006226 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1234380006227 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 1234380006228 active site 1234380006229 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1234380006230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1234380006231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380006232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380006233 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1234380006234 Walker A/P-loop; other site 1234380006235 ATP binding site [chemical binding]; other site 1234380006236 Q-loop/lid; other site 1234380006237 ABC transporter signature motif; other site 1234380006238 Walker B; other site 1234380006239 D-loop; other site 1234380006240 H-loop/switch region; other site 1234380006241 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1234380006242 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380006243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380006244 Walker A/P-loop; other site 1234380006245 ATP binding site [chemical binding]; other site 1234380006246 Q-loop/lid; other site 1234380006247 ABC transporter signature motif; other site 1234380006248 Walker B; other site 1234380006249 D-loop; other site 1234380006250 H-loop/switch region; other site 1234380006251 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 1234380006252 EcsC protein family; Region: EcsC; pfam12787 1234380006253 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1234380006254 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1234380006255 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1234380006256 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 1234380006257 Walker A/P-loop; other site 1234380006258 ATP binding site [chemical binding]; other site 1234380006259 Q-loop/lid; other site 1234380006260 ABC transporter signature motif; other site 1234380006261 Walker B; other site 1234380006262 D-loop; other site 1234380006263 H-loop/switch region; other site 1234380006264 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1234380006265 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 1234380006266 E3 interaction surface; other site 1234380006267 lipoyl attachment site [posttranslational modification]; other site 1234380006268 e3 binding domain; Region: E3_binding; pfam02817 1234380006269 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1234380006270 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1234380006271 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 1234380006272 alpha subunit interface [polypeptide binding]; other site 1234380006273 TPP binding site [chemical binding]; other site 1234380006274 heterodimer interface [polypeptide binding]; other site 1234380006275 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1234380006276 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1234380006277 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 1234380006278 TPP-binding site [chemical binding]; other site 1234380006279 tetramer interface [polypeptide binding]; other site 1234380006280 heterodimer interface [polypeptide binding]; other site 1234380006281 phosphorylation loop region [posttranslational modification] 1234380006282 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1234380006283 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 1234380006284 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 1234380006285 FeS/SAM binding site; other site 1234380006286 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1234380006287 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1234380006288 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1234380006289 active site 1234380006290 metal binding site [ion binding]; metal-binding site 1234380006291 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1234380006292 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1234380006293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1234380006294 H-loop/switch region; other site 1234380006295 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1234380006296 WYL domain; Region: WYL; pfam13280 1234380006297 HTH domain; Region: HTH_11; pfam08279 1234380006298 Integrase core domain; Region: rve_3; pfam13683 1234380006299 Lipase (class 2); Region: Lipase_2; pfam01674 1234380006300 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380006301 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380006302 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380006303 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1234380006304 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 1234380006305 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1234380006306 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1234380006307 active site 1234380006308 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1234380006309 proposed catalytic triad [active] 1234380006310 active site nucleophile [active] 1234380006311 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1234380006312 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 1234380006313 active site 1234380006314 phosphorylation site [posttranslational modification] 1234380006315 intermolecular recognition site; other site 1234380006316 dimerization interface [polypeptide binding]; other site 1234380006317 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 1234380006318 DNA binding site [nucleotide binding] 1234380006319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1234380006320 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 1234380006321 dimerization interface [polypeptide binding]; other site 1234380006322 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 1234380006323 dimer interface [polypeptide binding]; other site 1234380006324 phosphorylation site [posttranslational modification] 1234380006325 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 1234380006326 ATP binding site [chemical binding]; other site 1234380006327 Mg2+ binding site [ion binding]; other site 1234380006328 G-X-G motif; other site 1234380006329 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 1234380006330 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 1234380006331 active site 1234380006332 catalytic nucleophile [active] 1234380006333 dimer interface [polypeptide binding]; other site 1234380006334 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 1234380006335 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 1234380006336 active site 1234380006337 metal binding site [ion binding]; metal-binding site 1234380006338 nudix motif; other site 1234380006339 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1234380006340 YCII-related domain; Region: YCII; cl00999 1234380006341 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1234380006342 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 1234380006343 active site 1234380006344 FMN binding site [chemical binding]; other site 1234380006345 substrate binding site [chemical binding]; other site 1234380006346 homotetramer interface [polypeptide binding]; other site 1234380006347 catalytic residue [active] 1234380006348 metabolite-proton symporter; Region: 2A0106; TIGR00883 1234380006349 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 1234380006350 putative substrate translocation pore; other site 1234380006351 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK06539 1234380006352 ATP cone domain; Region: ATP-cone; pfam03477 1234380006353 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1234380006354 active site 1234380006355 dimer interface [polypeptide binding]; other site 1234380006356 catalytic residues [active] 1234380006357 effector binding site; other site 1234380006358 R2 peptide binding site; other site 1234380006359 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1234380006360 dimer interface [polypeptide binding]; other site 1234380006361 putative radical transfer pathway; other site 1234380006362 diiron center [ion binding]; other site 1234380006363 tyrosyl radical; other site 1234380006364 Bacterial PH domain; Region: DUF304; pfam03703 1234380006365 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1234380006366 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1234380006367 nucleotide binding site [chemical binding]; other site 1234380006368 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1234380006369 ornithine carbamoyltransferase; Validated; Region: PRK02102 1234380006370 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1234380006371 arginine-tRNA ligase; Region: PLN02286 1234380006372 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1234380006373 active site 1234380006374 HIGH motif; other site 1234380006375 KMSK motif region; other site 1234380006376 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1234380006377 tRNA binding surface [nucleotide binding]; other site 1234380006378 anticodon binding site; other site 1234380006379 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 1234380006380 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1234380006381 active site 1234380006382 catalytic tetrad [active] 1234380006383 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 1234380006384 putative active site [active] 1234380006385 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1234380006386 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 1234380006387 active site 1234380006388 dimer interface [polypeptide binding]; other site 1234380006389 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 1234380006390 dimer interface [polypeptide binding]; other site 1234380006391 active site 1234380006392 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1234380006393 active site 1234380006394 intersubunit interface [polypeptide binding]; other site 1234380006395 catalytic residue [active] 1234380006396 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1234380006397 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1234380006398 dimerization interface [polypeptide binding]; other site 1234380006399 DPS ferroxidase diiron center [ion binding]; other site 1234380006400 ion pore; other site 1234380006401 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 1234380006402 ATP binding site [chemical binding]; other site 1234380006403 putative Mg++ binding site [ion binding]; other site 1234380006404 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 1234380006405 nucleotide binding region [chemical binding]; other site 1234380006406 ATP-binding site [chemical binding]; other site 1234380006407 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 1234380006408 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1234380006409 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 1234380006410 FeS/SAM binding site; other site 1234380006411 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 1234380006412 ATP cone domain; Region: ATP-cone; pfam03477 1234380006413 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1234380006414 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1234380006415 active site 1234380006416 Zn binding site [ion binding]; other site 1234380006417 glycine loop; other site 1234380006418 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1234380006419 substrate binding site [chemical binding]; other site 1234380006420 Cutinase; Region: Cutinase; pfam01083 1234380006421 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1234380006422 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1234380006423 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1234380006424 NodB motif; other site 1234380006425 active site 1234380006426 catalytic site [active] 1234380006427 metal binding site [ion binding]; metal-binding site 1234380006428 TIGR03943 family protein; Region: TIGR03943 1234380006429 Predicted permease; Region: DUF318; cl17795 1234380006430 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1234380006431 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1234380006432 NodB motif; other site 1234380006433 active site 1234380006434 catalytic site [active] 1234380006435 metal binding site [ion binding]; metal-binding site 1234380006436 integral membrane protein MviN; Region: mviN; TIGR01695 1234380006437 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1234380006438 aspartate kinase; Reviewed; Region: PRK06635 1234380006439 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1234380006440 putative nucleotide binding site [chemical binding]; other site 1234380006441 putative catalytic residues [active] 1234380006442 putative Mg ion binding site [ion binding]; other site 1234380006443 putative aspartate binding site [chemical binding]; other site 1234380006444 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1234380006445 putative allosteric regulatory site; other site 1234380006446 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1234380006447 putative allosteric regulatory residue; other site 1234380006448 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1234380006449 Transglycosylase; Region: Transgly; pfam00912 1234380006450 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1234380006451 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 1234380006452 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1234380006453 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1234380006454 putative active site [active] 1234380006455 putative metal binding site [ion binding]; other site 1234380006456 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1234380006457 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1234380006458 proposed catalytic triad [active] 1234380006459 conserved cys residue [active] 1234380006460 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1234380006461 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 1234380006462 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1234380006463 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 1234380006464 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 1234380006465 ABC-ATPase subunit interface; other site 1234380006466 putative PBP binding loops; other site 1234380006467 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1234380006468 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1234380006469 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 1234380006470 dimer interface [polypeptide binding]; other site 1234380006471 conserved gate region; other site 1234380006472 putative PBP binding loops; other site 1234380006473 ABC-ATPase subunit interface; other site 1234380006474 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1234380006475 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1234380006476 Walker A/P-loop; other site 1234380006477 ATP binding site [chemical binding]; other site 1234380006478 Q-loop/lid; other site 1234380006479 ABC transporter signature motif; other site 1234380006480 Walker B; other site 1234380006481 D-loop; other site 1234380006482 H-loop/switch region; other site 1234380006483 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1234380006484 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1234380006485 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1234380006486 Walker A/P-loop; other site 1234380006487 ATP binding site [chemical binding]; other site 1234380006488 Q-loop/lid; other site 1234380006489 ABC transporter signature motif; other site 1234380006490 Walker B; other site 1234380006491 D-loop; other site 1234380006492 H-loop/switch region; other site 1234380006493 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1234380006494 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1234380006495 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1234380006496 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1234380006497 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1234380006498 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1234380006499 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1234380006500 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1234380006501 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1234380006502 urocanate hydratase; Provisional; Region: PRK05414 1234380006503 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1234380006504 allantoate amidohydrolase; Reviewed; Region: PRK09290 1234380006505 active site 1234380006506 metal binding site [ion binding]; metal-binding site 1234380006507 dimer interface [polypeptide binding]; other site 1234380006508 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1234380006509 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 1234380006510 active site 1234380006511 imidazolonepropionase; Provisional; Region: PRK14085 1234380006512 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 1234380006513 active site 1234380006514 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1234380006515 active sites [active] 1234380006516 tetramer interface [polypeptide binding]; other site 1234380006517 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1234380006518 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 1234380006519 NAD-dependent deacetylase; Provisional; Region: PRK00481 1234380006520 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 1234380006521 NAD+ binding site [chemical binding]; other site 1234380006522 substrate binding site [chemical binding]; other site 1234380006523 Zn binding site [ion binding]; other site 1234380006524 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1234380006525 Bacterial SH3 domain; Region: SH3_3; pfam08239 1234380006526 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1234380006527 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1234380006528 Transcription regulator of the Arc/MetJ class [Transcription]; Region: COG5450 1234380006529 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1234380006530 potassium/proton antiporter; Reviewed; Region: PRK05326 1234380006531 TrkA-C domain; Region: TrkA_C; pfam02080 1234380006532 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1234380006533 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1234380006534 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 1234380006535 nucleoside/Zn binding site; other site 1234380006536 dimer interface [polypeptide binding]; other site 1234380006537 catalytic motif [active] 1234380006538 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 1234380006539 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1234380006540 active site 1234380006541 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1234380006542 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1234380006543 active site 1234380006544 catalytic site [active] 1234380006545 PA2301 is an uncharacterized Pseudomonas aeruginosa 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...; Region: PA2301; cd04939 1234380006546 putative deacylase active site [active] 1234380006547 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1234380006548 K+ potassium transporter; Region: K_trans; pfam02705 1234380006549 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1234380006550 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1234380006551 catalytic triad [active] 1234380006552 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1234380006553 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1234380006554 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380006555 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380006556 DNA binding site [nucleotide binding] 1234380006557 domain linker motif; other site 1234380006558 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 1234380006559 ligand binding site [chemical binding]; other site 1234380006560 dimerization interface (open form) [polypeptide binding]; other site 1234380006561 dimerization interface (closed form) [polypeptide binding]; other site 1234380006562 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1234380006563 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1234380006564 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u2; cd11478 1234380006565 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1234380006566 Na binding site [ion binding]; other site 1234380006567 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1234380006568 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1234380006569 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1234380006570 NAD(P) binding site [chemical binding]; other site 1234380006571 argininosuccinate synthase; Validated; Region: PRK05370 1234380006572 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 1234380006573 putative substrate translocation pore; other site 1234380006574 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1234380006575 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1234380006576 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1234380006577 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1234380006578 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1234380006579 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 1234380006580 active site 1234380006581 motif I; other site 1234380006582 motif II; other site 1234380006583 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 1234380006584 thiazolylpeptide-type bacteriocin precursor; Region: thiopep_precurs; TIGR03892 1234380006585 potential frameshift: common BLAST hit: gi|387504563|ref|YP_005945792.1| ABC transporter ATP-binding protein 1234380006586 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1234380006587 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1234380006588 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 1234380006589 non-specific DNA binding site [nucleotide binding]; other site 1234380006590 salt bridge; other site 1234380006591 sequence-specific DNA binding site [nucleotide binding]; other site 1234380006592 Cupin domain; Region: Cupin_2; pfam07883 1234380006593 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1234380006594 B3/4 domain; Region: B3_4; pfam03483 1234380006595 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1234380006596 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1234380006597 Na binding site [ion binding]; other site 1234380006598 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1234380006599 CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with...; Region: CIDE_N; cl02541 1234380006600 oxidoreductase; Provisional; Region: PRK10015 1234380006601 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1234380006602 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1234380006603 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1234380006604 Ligand binding site [chemical binding]; other site 1234380006605 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1234380006606 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1234380006607 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1234380006608 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1234380006609 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1234380006610 active site 1234380006611 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1234380006612 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1234380006613 Bacterial transcriptional regulator; Region: IclR; pfam01614 1234380006614 seryl-tRNA synthetase; Provisional; Region: PRK05431 1234380006615 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1234380006616 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 1234380006617 dimer interface [polypeptide binding]; other site 1234380006618 active site 1234380006619 motif 1; other site 1234380006620 motif 2; other site 1234380006621 motif 3; other site 1234380006622 PRC-barrel domain; Region: PRC; pfam05239 1234380006623 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 1234380006624 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1234380006625 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1234380006626 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1234380006627 phosphate binding motif [ion binding]; other site 1234380006628 Siderophore-interacting protein; Region: SIP; pfam04954 1234380006629 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 1234380006630 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1234380006631 Ferritin-like domain; Region: Ferritin; pfam00210 1234380006632 ferroxidase diiron center [ion binding]; other site 1234380006633 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1234380006634 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1234380006635 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1234380006636 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1234380006637 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1234380006638 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 1234380006639 dimer interface [polypeptide binding]; other site 1234380006640 ssDNA binding site [nucleotide binding]; other site 1234380006641 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1234380006642 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1234380006643 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 1234380006644 active site residue [active] 1234380006645 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 1234380006646 active site 1234380006647 phosphorylation site [posttranslational modification] 1234380006648 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1234380006649 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 1234380006650 active site 1234380006651 P-loop; other site 1234380006652 phosphorylation site [posttranslational modification] 1234380006653 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1234380006654 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1234380006655 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1234380006656 acyl-activating enzyme (AAE) consensus motif; other site 1234380006657 putative AMP binding site [chemical binding]; other site 1234380006658 putative active site [active] 1234380006659 putative CoA binding site [chemical binding]; other site 1234380006660 endonuclease IV; Provisional; Region: PRK01060 1234380006661 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 1234380006662 AP (apurinic/apyrimidinic) site pocket; other site 1234380006663 DNA interaction; other site 1234380006664 Metal-binding active site; metal-binding site 1234380006665 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1234380006666 classical (c) SDRs; Region: SDR_c; cd05233 1234380006667 NAD(P) binding site [chemical binding]; other site 1234380006668 active site 1234380006669 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1234380006670 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1234380006671 putative acyl-acceptor binding pocket; other site 1234380006672 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1234380006673 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1234380006674 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1234380006675 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1234380006676 G5 domain; Region: G5; pfam07501 1234380006677 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1234380006678 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1234380006679 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 1234380006680 metal-binding site [ion binding] 1234380006681 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1234380006682 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1234380006683 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 1234380006684 metal-binding site [ion binding] 1234380006685 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 1234380006686 putative homodimer interface [polypeptide binding]; other site 1234380006687 putative homotetramer interface [polypeptide binding]; other site 1234380006688 putative allosteric switch controlling residues; other site 1234380006689 putative metal binding site [ion binding]; other site 1234380006690 putative homodimer-homodimer interface [polypeptide binding]; other site 1234380006691 replicative DNA helicase; Region: DnaB; TIGR00665 1234380006692 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1234380006693 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 1234380006694 Walker A motif; other site 1234380006695 ATP binding site [chemical binding]; other site 1234380006696 Walker B motif; other site 1234380006697 DNA binding loops [nucleotide binding] 1234380006698 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1234380006699 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1234380006700 putative NAD(P) binding site [chemical binding]; other site 1234380006701 dimer interface [polypeptide binding]; other site 1234380006702 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1234380006703 active site 1234380006704 DNA binding site [nucleotide binding] 1234380006705 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 1234380006706 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 1234380006707 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1234380006708 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 1234380006709 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1234380006710 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1234380006711 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1234380006712 dimerization interface [polypeptide binding]; other site 1234380006713 ligand binding site [chemical binding]; other site 1234380006714 NADP binding site [chemical binding]; other site 1234380006715 catalytic site [active] 1234380006716 MarR family; Region: MarR_2; cl17246 1234380006717 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 1234380006718 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 1234380006719 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1234380006720 Cl- selectivity filter; other site 1234380006721 Cl- binding residues [ion binding]; other site 1234380006722 pore gating glutamate residue; other site 1234380006723 dimer interface [polypeptide binding]; other site 1234380006724 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1234380006725 MarR family; Region: MarR_2; cl17246 1234380006726 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1234380006727 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1234380006728 active site 1234380006729 metal binding site [ion binding]; metal-binding site 1234380006730 Predicted ATPases [General function prediction only]; Region: COG1106 1234380006731 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1234380006732 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1234380006733 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1234380006734 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1234380006735 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1234380006736 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1234380006737 WHG domain; Region: WHG; pfam13305 1234380006738 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1234380006739 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 1234380006740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380006741 catalytic residue [active] 1234380006742 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 1234380006743 putative deacylase active site [active] 1234380006744 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1234380006745 NAD synthetase; Reviewed; Region: nadE; PRK02628 1234380006746 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1234380006747 multimer interface [polypeptide binding]; other site 1234380006748 active site 1234380006749 catalytic triad [active] 1234380006750 protein interface 1 [polypeptide binding]; other site 1234380006751 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 1234380006752 homodimer interface [polypeptide binding]; other site 1234380006753 NAD binding pocket [chemical binding]; other site 1234380006754 ATP binding pocket [chemical binding]; other site 1234380006755 Mg binding site [ion binding]; other site 1234380006756 active-site loop [active] 1234380006757 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 1234380006758 6-phosphofructokinase, eukaryotic type; Region: 6PF1K_euk; TIGR02478 1234380006759 active site 1234380006760 ADP/pyrophosphate binding site [chemical binding]; other site 1234380006761 dimerization interface [polypeptide binding]; other site 1234380006762 allosteric effector site; other site 1234380006763 fructose-1,6-bisphosphate binding site; other site 1234380006764 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1234380006765 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1234380006766 hexamer interface [polypeptide binding]; other site 1234380006767 ligand binding site [chemical binding]; other site 1234380006768 putative active site [active] 1234380006769 NAD(P) binding site [chemical binding]; other site 1234380006770 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1234380006771 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 1234380006772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1234380006773 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1234380006774 Bacterial SH3 domain; Region: SH3_3; pfam08239 1234380006775 Bacterial SH3 domain; Region: SH3_3; pfam08239 1234380006776 Bacterial SH3 domain; Region: SH3_4; pfam06347 1234380006777 Bacterial SH3 domain; Region: SH3_4; pfam06347 1234380006778 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1234380006779 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1234380006780 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 1234380006781 dimer interface [polypeptide binding]; other site 1234380006782 Citrate synthase; Region: Citrate_synt; pfam00285 1234380006783 active site 1234380006784 citrylCoA binding site [chemical binding]; other site 1234380006785 NADH binding [chemical binding]; other site 1234380006786 cationic pore residues; other site 1234380006787 oxalacetate/citrate binding site [chemical binding]; other site 1234380006788 coenzyme A binding site [chemical binding]; other site 1234380006789 catalytic triad [active] 1234380006790 adenosine deaminase; Provisional; Region: PRK09358 1234380006791 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1234380006792 active site 1234380006793 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1234380006794 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1234380006795 hexamer interface [polypeptide binding]; other site 1234380006796 ligand binding site [chemical binding]; other site 1234380006797 putative active site [active] 1234380006798 NAD(P) binding site [chemical binding]; other site 1234380006799 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1234380006800 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1234380006801 AsnC family; Region: AsnC_trans_reg; pfam01037 1234380006802 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1234380006803 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1234380006804 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 1234380006805 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1234380006806 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1234380006807 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 1234380006808 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1234380006809 catalytic residue [active] 1234380006810 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 1234380006811 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 1234380006812 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1234380006813 B12 binding site [chemical binding]; other site 1234380006814 MutL protein; Region: MutL; pfam13941 1234380006815 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 1234380006816 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 1234380006817 active site 1234380006818 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1234380006819 dimer interface [polypeptide binding]; other site 1234380006820 substrate binding site [chemical binding]; other site 1234380006821 catalytic residue [active] 1234380006822 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1234380006823 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1234380006824 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1234380006825 alanine racemase; Reviewed; Region: alr; PRK00053 1234380006826 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1234380006827 active site 1234380006828 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1234380006829 dimer interface [polypeptide binding]; other site 1234380006830 substrate binding site [chemical binding]; other site 1234380006831 catalytic residues [active] 1234380006832 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1234380006833 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 1234380006834 active site 1234380006835 substrate binding site [chemical binding]; other site 1234380006836 metal binding site [ion binding]; metal-binding site 1234380006837 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1234380006838 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1234380006839 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1234380006840 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1234380006841 active site 1234380006842 Substrate binding site; other site 1234380006843 Mg++ binding site; other site 1234380006844 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1234380006845 putative active site [active] 1234380006846 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1234380006847 Class II fumarases; Region: Fumarase_classII; cd01362 1234380006848 active site 1234380006849 tetramer interface [polypeptide binding]; other site 1234380006850 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1234380006851 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 1234380006852 dimer interface [polypeptide binding]; other site 1234380006853 conserved gate region; other site 1234380006854 putative PBP binding loops; other site 1234380006855 ABC-ATPase subunit interface; other site 1234380006856 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 1234380006857 dimer interface [polypeptide binding]; other site 1234380006858 conserved gate region; other site 1234380006859 ABC-ATPase subunit interface; other site 1234380006860 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1234380006861 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1234380006862 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380006863 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380006864 DNA binding site [nucleotide binding] 1234380006865 domain linker motif; other site 1234380006866 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 1234380006867 putative dimerization interface [polypeptide binding]; other site 1234380006868 putative ligand binding site [chemical binding]; other site 1234380006869 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1234380006870 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1234380006871 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1234380006872 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1234380006873 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 1234380006874 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1234380006875 active site 1234380006876 NTP binding site [chemical binding]; other site 1234380006877 metal binding triad [ion binding]; metal-binding site 1234380006878 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1234380006879 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1234380006880 Zn2+ binding site [ion binding]; other site 1234380006881 Mg2+ binding site [ion binding]; other site 1234380006882 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1234380006883 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1234380006884 ATP binding site [chemical binding]; other site 1234380006885 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1234380006886 glycerol kinase; Provisional; Region: glpK; PRK00047 1234380006887 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 1234380006888 N- and C-terminal domain interface [polypeptide binding]; other site 1234380006889 active site 1234380006890 MgATP binding site [chemical binding]; other site 1234380006891 catalytic site [active] 1234380006892 metal binding site [ion binding]; metal-binding site 1234380006893 putative homotetramer interface [polypeptide binding]; other site 1234380006894 glycerol binding site [chemical binding]; other site 1234380006895 homodimer interface [polypeptide binding]; other site 1234380006896 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1234380006897 amphipathic channel; other site 1234380006898 Asn-Pro-Ala signature motifs; other site 1234380006899 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1234380006900 Helix-turn-helix domain; Region: HTH_28; pfam13518 1234380006901 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1234380006902 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1234380006903 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 1234380006904 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1234380006905 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1234380006906 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1234380006907 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1234380006908 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1234380006909 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1234380006910 probable active site [active] 1234380006911 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 1234380006912 putative substrate translocation pore; other site 1234380006913 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 1234380006914 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1234380006915 substrate binding pocket [chemical binding]; other site 1234380006916 OsmC-like protein; Region: OsmC; pfam02566 1234380006917 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 1234380006918 catalytic residues [active] 1234380006919 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1234380006920 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380006921 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380006922 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380006923 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1234380006924 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1234380006925 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 1234380006926 non-specific DNA interactions [nucleotide binding]; other site 1234380006927 DNA binding site [nucleotide binding] 1234380006928 sequence specific DNA binding site [nucleotide binding]; other site 1234380006929 putative cAMP binding site [chemical binding]; other site 1234380006930 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1234380006931 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1234380006932 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 1234380006933 TPP-binding site [chemical binding]; other site 1234380006934 dimer interface [polypeptide binding]; other site 1234380006935 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 1234380006936 PYR/PP interface [polypeptide binding]; other site 1234380006937 dimer interface [polypeptide binding]; other site 1234380006938 TPP binding site [chemical binding]; other site 1234380006939 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1234380006940 ribulokinase; Provisional; Region: PRK04123 1234380006941 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 1234380006942 N- and C-terminal domain interface [polypeptide binding]; other site 1234380006943 active site 1234380006944 MgATP binding site [chemical binding]; other site 1234380006945 catalytic site [active] 1234380006946 metal binding site [ion binding]; metal-binding site 1234380006947 carbohydrate binding site [chemical binding]; other site 1234380006948 homodimer interface [polypeptide binding]; other site 1234380006949 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 1234380006950 active site 1234380006951 metal binding site [ion binding]; metal-binding site 1234380006952 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1234380006953 Carbohydrate kinase and ribulose-phosphate 3-epimerase fusion proteins-like; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CarbK-RPE_like; cd07783 1234380006954 N- and C-terminal domain interface [polypeptide binding]; other site 1234380006955 active site 1234380006956 MgATP binding site [chemical binding]; other site 1234380006957 catalytic site [active] 1234380006958 metal binding site [ion binding]; metal-binding site 1234380006959 putative carbohydrate binding site [chemical binding]; other site 1234380006960 putative homodimer interface [polypeptide binding]; other site 1234380006961 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1234380006962 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 1234380006963 active site 1234380006964 motif I; other site 1234380006965 motif II; other site 1234380006966 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 1234380006967 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1234380006968 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 1234380006969 active site 1234380006970 Zn2+ binding site [ion binding]; other site 1234380006971 intersubunit interface [polypeptide binding]; other site 1234380006972 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1234380006973 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1234380006974 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1234380006975 mannonate dehydratase; Provisional; Region: PRK03906 1234380006976 mannonate dehydratase; Region: uxuA; TIGR00695 1234380006977 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1234380006978 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1234380006979 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1234380006980 glucuronate isomerase; Reviewed; Region: PRK02925 1234380006981 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1234380006982 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1234380006983 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1234380006984 DNA binding site [nucleotide binding] 1234380006985 domain linker motif; other site 1234380006986 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 1234380006987 dimerization interface [polypeptide binding]; other site 1234380006988 ligand binding site [chemical binding]; other site 1234380006989 MFS/sugar transport protein; Region: MFS_2; pfam13347 1234380006990 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1234380006991 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1234380006992 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1234380006993 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1234380006994 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1234380006995 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1234380006996 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 1234380006997 putative active site [active] 1234380006998 putative catalytic site [active] 1234380006999 beta-D-glucuronidase; Provisional; Region: PRK10150 1234380007000 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1234380007001 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1234380007002 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1234380007003 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1234380007004 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1234380007005 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 1234380007006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1234380007007 homodimer interface [polypeptide binding]; other site 1234380007008 catalytic residue [active] 1234380007009 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1234380007010 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1234380007011 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1234380007012 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1234380007013 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1234380007014 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1234380007015 ParB-like nuclease domain; Region: ParB; smart00470 1234380007016 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1234380007017 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 1234380007018 P-loop; other site 1234380007019 Magnesium ion binding site [ion binding]; other site 1234380007020 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 1234380007021 Magnesium ion binding site [ion binding]; other site 1234380007022 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1234380007023 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1234380007024 Alanine racemase, N-terminal domain; Region: Ala_racemase_N; pfam01168 1234380007025 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1234380007026 catalytic residue [active] 1234380007027 FemAB family; Region: FemAB; pfam02388 1234380007028 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1234380007029 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1234380007030 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1234380007031 G-X-X-G motif; other site 1234380007032 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1234380007033 RxxxH motif; other site 1234380007034 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01315 1234380007035 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1234380007036 Haemolytic domain; Region: Haemolytic; pfam01809 1234380007037 Ribonuclease P; Region: Ribonuclease_P; cl00457 1234380007038 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399