-- dump date 20120504_135436 -- class Genbank::misc_feature -- table misc_feature_note -- id note 444178000001 replication initiation protein RepC; Provisional; Region: PRK13824 444178000002 Helix-turn-helix domains; Region: HTH; cl00088 444178000003 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 444178000004 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 444178000005 active site 444178000006 tetramer interface [polypeptide binding]; other site 444178000007 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 444178000008 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 444178000009 TM-ABC transporter signature motif; other site 444178000010 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 444178000011 TM-ABC transporter signature motif; other site 444178000012 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 444178000013 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 444178000014 Walker A/P-loop; other site 444178000015 ATP binding site [chemical binding]; other site 444178000016 Q-loop/lid; other site 444178000017 ABC transporter signature motif; other site 444178000018 Walker B; other site 444178000019 D-loop; other site 444178000020 H-loop/switch region; other site 444178000021 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 444178000022 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 444178000023 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 444178000024 ligand binding site [chemical binding]; other site 444178000025 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 444178000026 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 444178000027 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 444178000028 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 444178000029 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 444178000030 putative NAD(P) binding site [chemical binding]; other site 444178000031 active site 444178000032 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 444178000033 hydrophobic substrate binding pocket; other site 444178000034 Isochorismatase family; Region: Isochorismatase; pfam00857 444178000035 active site 444178000036 conserved cis-peptide bond; other site 444178000037 Phosphopantetheine attachment site; Region: PP-binding; cl09936 444178000038 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 444178000039 AMP-binding enzyme; Region: AMP-binding; cl15778 444178000040 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 444178000041 chorismate binding enzyme; Region: Chorismate_bind; cl10555 444178000042 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 444178000043 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 444178000044 Moco binding site; other site 444178000045 metal coordination site [ion binding]; other site 444178000046 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 444178000047 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 444178000048 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 444178000049 RNA polymerase sigma factor; Provisional; Region: PRK12539 444178000050 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444178000051 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 444178000052 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 444178000053 Transcriptional regulators [Transcription]; Region: FadR; COG2186 444178000054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178000055 DNA-binding site [nucleotide binding]; DNA binding site 444178000056 FCD domain; Region: FCD; cl11656 444178000057 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 444178000058 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 444178000059 putative ligand binding site [chemical binding]; other site 444178000060 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 444178000061 TM-ABC transporter signature motif; other site 444178000062 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 444178000063 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 444178000064 Walker A/P-loop; other site 444178000065 ATP binding site [chemical binding]; other site 444178000066 Q-loop/lid; other site 444178000067 ABC transporter signature motif; other site 444178000068 Walker B; other site 444178000069 D-loop; other site 444178000070 H-loop/switch region; other site 444178000071 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 444178000072 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 444178000073 Walker A/P-loop; other site 444178000074 ATP binding site [chemical binding]; other site 444178000075 Q-loop/lid; other site 444178000076 ABC transporter signature motif; other site 444178000077 Walker B; other site 444178000078 D-loop; other site 444178000079 H-loop/switch region; other site 444178000080 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 444178000081 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178000082 active site 444178000083 metal binding site [ion binding]; metal-binding site 444178000084 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 444178000085 classical (c) SDRs; Region: SDR_c; cd05233 444178000086 NAD(P) binding site [chemical binding]; other site 444178000087 active site 444178000088 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 444178000089 classical (c) SDRs; Region: SDR_c; cd05233 444178000090 NAD(P) binding site [chemical binding]; other site 444178000091 active site 444178000092 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 444178000093 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 444178000094 tetramer interface [polypeptide binding]; other site 444178000095 TPP-binding site [chemical binding]; other site 444178000096 heterodimer interface [polypeptide binding]; other site 444178000097 phosphorylation loop region [posttranslational modification] 444178000098 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 444178000099 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 444178000100 alpha subunit interface [polypeptide binding]; other site 444178000101 TPP binding site [chemical binding]; other site 444178000102 heterodimer interface [polypeptide binding]; other site 444178000103 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 444178000104 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 444178000105 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 444178000106 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 444178000107 shikimate binding site; other site 444178000108 NAD(P) binding site [chemical binding]; other site 444178000109 magnesium-transporting ATPase; Provisional; Region: PRK15122 444178000110 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 444178000111 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 444178000112 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178000113 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 444178000114 magnesium transport protein MgtC; Provisional; Region: PRK15385 444178000115 MgtC family; Region: MgtC; pfam02308 444178000116 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 444178000117 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 444178000118 ATP binding site [chemical binding]; other site 444178000119 Mg2+ binding site [ion binding]; other site 444178000120 G-X-G motif; other site 444178000121 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 444178000122 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 444178000123 active site 444178000124 phosphorylation site [posttranslational modification] 444178000125 intermolecular recognition site; other site 444178000126 dimerization interface [polypeptide binding]; other site 444178000127 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 444178000128 dimerization interface [polypeptide binding]; other site 444178000129 DNA binding residues [nucleotide binding] 444178000130 Response regulator receiver domain; Region: Response_reg; pfam00072 444178000131 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 444178000132 active site 444178000133 phosphorylation site [posttranslational modification] 444178000134 intermolecular recognition site; other site 444178000135 dimerization interface [polypeptide binding]; other site 444178000136 N-formylglutamate amidohydrolase; Region: FGase; cl01522 444178000137 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 444178000138 active site 444178000139 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 444178000140 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; cl12031 444178000141 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 444178000142 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 444178000143 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 444178000144 active site 444178000145 dimer interface [polypeptide binding]; other site 444178000146 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 444178000147 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 444178000148 active site 444178000149 FMN binding site [chemical binding]; other site 444178000150 substrate binding site [chemical binding]; other site 444178000151 3Fe-4S cluster binding site [ion binding]; other site 444178000152 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 444178000153 domain interface; other site 444178000154 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 444178000155 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 444178000156 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, 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...; Region: SGNH_hydrolase_peri2; cd01829 444178000157 active site 444178000158 catalytic triad [active] 444178000159 oxyanion hole [active] 444178000160 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444178000161 ligand binding site [chemical binding]; other site 444178000162 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 444178000163 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 444178000164 Walker A motif; other site 444178000165 hexamer interface [polypeptide binding]; other site 444178000166 ATP binding site [chemical binding]; other site 444178000167 Walker B motif; other site 444178000168 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 444178000169 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 444178000170 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 444178000171 VirB7 interaction site; other site 444178000172 VirB8 protein; Region: VirB8; cl01500 444178000173 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 444178000174 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 444178000175 Type IV secretion system proteins; Region: T4SS; pfam07996 444178000176 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 444178000177 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 444178000178 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 444178000179 TrbC/VIRB2 family; Region: TrbC; cl01583 444178000180 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 444178000181 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444178000182 catalytic residue [active] 444178000183 lytic murein transglycosylase; Region: MltB_2; TIGR02283 444178000184 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 444178000185 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 444178000186 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 444178000187 active site 444178000188 tetramer interface; other site 444178000189 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178000190 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 444178000191 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 444178000192 putative active site [active] 444178000193 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 444178000194 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 444178000195 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 444178000196 ferrochelatase; Reviewed; Region: hemH; PRK00035 444178000197 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 444178000198 C-terminal domain interface [polypeptide binding]; other site 444178000199 active site 444178000200 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 444178000201 active site 444178000202 N-terminal domain interface [polypeptide binding]; other site 444178000203 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 444178000204 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 444178000205 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 444178000206 substrate-cofactor binding pocket; other site 444178000207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178000208 homodimer interface [polypeptide binding]; other site 444178000209 catalytic residue [active] 444178000210 aminodeoxychorismate synthase; Provisional; Region: PRK07508 444178000211 chorismate binding enzyme; Region: Chorismate_bind; cl10555 444178000212 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 444178000213 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 444178000214 active site 444178000215 Zn binding site [ion binding]; other site 444178000216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 444178000217 Peptidase M15; Region: Peptidase_M15_3; cl01194 444178000218 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 444178000219 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 444178000220 active site 444178000221 intersubunit interface [polypeptide binding]; other site 444178000222 catalytic residue [active] 444178000223 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 444178000224 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 444178000225 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 444178000226 active site residue [active] 444178000227 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178000228 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 444178000229 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 444178000230 dimer interface [polypeptide binding]; other site 444178000231 conserved gate region; other site 444178000232 putative PBP binding loops; other site 444178000233 ABC-ATPase subunit interface; other site 444178000234 High-affinity nickel-transport protein; Region: NicO; cl00964 444178000235 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 444178000236 Amidase; Region: Amidase; cl11426 444178000237 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 444178000238 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 444178000239 dimer interface [polypeptide binding]; other site 444178000240 active site 444178000241 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444178000242 catalytic residues [active] 444178000243 substrate binding site [chemical binding]; other site 444178000244 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 444178000245 Chain length determinant protein; Region: Wzz; cl15801 444178000246 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 444178000247 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 444178000248 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 444178000249 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 444178000250 active site 444178000251 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178000252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000253 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178000254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000255 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 444178000256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000257 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 444178000258 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 444178000259 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 444178000260 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178000261 Walker A/P-loop; other site 444178000262 ATP binding site [chemical binding]; other site 444178000263 Q-loop/lid; other site 444178000264 ABC transporter signature motif; other site 444178000265 Walker B; other site 444178000266 D-loop; other site 444178000267 H-loop/switch region; other site 444178000268 TOBE domain; Region: TOBE_2; cl01440 444178000269 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 444178000270 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 444178000271 dimer interface [polypeptide binding]; other site 444178000272 conserved gate region; other site 444178000273 putative PBP binding loops; other site 444178000274 ABC-ATPase subunit interface; other site 444178000275 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 444178000276 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 444178000277 dimer interface [polypeptide binding]; other site 444178000278 conserved gate region; other site 444178000279 putative PBP binding loops; other site 444178000280 ABC-ATPase subunit interface; other site 444178000281 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 444178000282 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178000283 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 444178000284 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 444178000285 putative substrate translocation pore; other site 444178000286 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 444178000287 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178000288 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178000289 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444178000290 Helix-turn-helix domains; Region: HTH; cl00088 444178000291 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 444178000292 Autoinducer binding domain; Region: Autoind_bind; pfam03472 444178000293 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 444178000294 DNA binding residues [nucleotide binding] 444178000295 dimerization interface [polypeptide binding]; other site 444178000296 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 444178000297 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 444178000298 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 444178000299 FliG C-terminal domain; Region: FliG_C; pfam01706 444178000300 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 444178000301 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 444178000302 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 444178000303 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 444178000304 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 444178000305 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 444178000306 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 444178000307 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 444178000308 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 444178000309 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178000310 Walker A motif; other site 444178000311 ATP binding site [chemical binding]; other site 444178000312 Walker B motif; other site 444178000313 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 444178000314 active site 444178000315 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 444178000316 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 444178000317 Ligand binding site; other site 444178000318 Putative Catalytic site; other site 444178000319 DXD motif; other site 444178000320 Peptidase family M48; Region: Peptidase_M48; cl12018 444178000321 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 444178000322 putative active site [active] 444178000323 YdjC motif; other site 444178000324 Mg binding site [ion binding]; other site 444178000325 putative homodimer interface [polypeptide binding]; other site 444178000326 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 444178000327 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 444178000328 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 444178000329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444178000330 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 444178000331 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 444178000332 putative substrate translocation pore; other site 444178000333 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 444178000334 intersubunit interface [polypeptide binding]; other site 444178000335 active site 444178000336 Zn2+ binding site [ion binding]; other site 444178000337 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 444178000338 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 444178000339 putative NAD(P) binding site [chemical binding]; other site 444178000340 active site 444178000341 putative substrate binding site [chemical binding]; other site 444178000342 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 444178000343 Helix-turn-helix domains; Region: HTH; cl00088 444178000344 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 444178000345 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 444178000346 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 444178000347 Metal-binding active site; metal-binding site 444178000348 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 444178000349 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 444178000350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000351 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 444178000352 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 444178000353 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 444178000354 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 444178000355 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 444178000356 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 444178000357 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 444178000358 MgtE intracellular N domain; Region: MgtE_N; cl15244 444178000359 Flagellar L-ring protein; Region: FlgH; cl00905 444178000360 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 444178000361 FliP family; Region: FliP; cl00593 444178000362 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 444178000363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444178000364 Helix-turn-helix domains; Region: HTH; cl00088 444178000365 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 444178000366 putative dimerization interface [polypeptide binding]; other site 444178000367 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 444178000368 CoA-transferase family III; Region: CoA_transf_3; pfam02515 444178000369 Uncharacterized conserved protein [Function unknown]; Region: COG3777 444178000370 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 444178000371 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 444178000372 active site 2 [active] 444178000373 active site 1 [active] 444178000374 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; cl09155 444178000375 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 444178000376 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178000377 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 444178000378 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 444178000379 Cytochrome c; Region: Cytochrom_C; cl11414 444178000380 Protein of unknown function (DUF465); Region: DUF465; cl01070 444178000381 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 444178000382 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178000383 DNA-binding site [nucleotide binding]; DNA binding site 444178000384 FCD domain; Region: FCD; cl11656 444178000385 Helix-turn-helix domains; Region: HTH; cl00088 444178000386 transcriptional activator TtdR; Provisional; Region: PRK09801 444178000387 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 444178000388 putative effector binding pocket; other site 444178000389 dimerization interface [polypeptide binding]; other site 444178000390 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178000391 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 444178000392 FAD binding domain; Region: FAD_binding_4; pfam01565 444178000393 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 444178000394 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444178000395 active site 444178000396 catalytic tetrad [active] 444178000397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 444178000398 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178000399 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 444178000400 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 ATP-dependent...; Region: HisRS-like_core; cd00773 444178000401 dimer interface [polypeptide binding]; other site 444178000402 motif 1; other site 444178000403 motif 2; other site 444178000404 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 attaches...; Region: class_II_aaRS-like_core; cl00268 444178000405 active site 444178000406 motif 3; other site 444178000407 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 444178000408 anticodon binding site; other site 444178000409 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 444178000410 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 attaches...; Region: class_II_aaRS-like_core; cl00268 444178000411 motif 1; other site 444178000412 dimer interface [polypeptide binding]; other site 444178000413 active site 444178000414 motif 2; other site 444178000415 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 attaches...; Region: class_II_aaRS-like_core; cl00268 444178000416 active site 444178000417 motif 3; other site 444178000418 ATP phosphoribosyltransferase; Region: HisG; cl15266 444178000419 DoxX; Region: DoxX; cl00976 444178000420 fumarate hydratase; Reviewed; Region: fumC; PRK00485 444178000421 Class II fumarases; Region: Fumarase_classII; cd01362 444178000422 active site 444178000423 tetramer interface [polypeptide binding]; other site 444178000424 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 444178000425 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 444178000426 ring oligomerisation interface [polypeptide binding]; other site 444178000427 ATP/Mg binding site [chemical binding]; other site 444178000428 stacking interactions; other site 444178000429 hinge regions; other site 444178000430 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 444178000431 oligomerisation interface [polypeptide binding]; other site 444178000432 mobile loop; other site 444178000433 roof hairpin; other site 444178000434 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 444178000435 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 444178000436 active site 444178000437 Riboflavin kinase; Region: Flavokinase; cl03312 444178000438 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 444178000439 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444178000440 active site 444178000441 HIGH motif; other site 444178000442 nucleotide binding site [chemical binding]; other site 444178000443 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 444178000444 active site 444178000445 KMSKS motif; other site 444178000446 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 444178000447 tRNA binding surface [nucleotide binding]; other site 444178000448 anticodon binding site; other site 444178000449 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 444178000450 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 444178000451 nucleoside/Zn binding site; other site 444178000452 dimer interface [polypeptide binding]; other site 444178000453 catalytic motif [active] 444178000454 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 444178000455 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 444178000456 RNA binding surface [nucleotide binding]; other site 444178000457 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 444178000458 active site 444178000459 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 444178000460 S-adenosylmethionine binding site [chemical binding]; other site 444178000461 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 444178000462 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 444178000463 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 444178000464 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 444178000465 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 444178000466 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 444178000467 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 444178000468 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 444178000469 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 444178000470 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 444178000471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000472 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 444178000473 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 444178000474 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 444178000475 active site 444178000476 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 444178000477 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 444178000478 putative acyl-acceptor binding pocket; other site 444178000479 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 444178000480 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 444178000481 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 444178000482 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 444178000483 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 444178000484 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 444178000485 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 444178000486 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 444178000487 ATP binding site [chemical binding]; other site 444178000488 Mg2+ binding site [ion binding]; other site 444178000489 G-X-G motif; other site 444178000490 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 444178000491 ATP binding site [chemical binding]; other site 444178000492 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 444178000493 benzoate transport; Region: 2A0115; TIGR00895 444178000494 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 444178000495 putative substrate translocation pore; other site 444178000496 Transcriptional regulator [Transcription]; Region: IclR; COG1414 444178000497 Helix-turn-helix domains; Region: HTH; cl00088 444178000498 Bacterial transcriptional regulator; Region: IclR; pfam01614 444178000499 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 444178000500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000501 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 444178000502 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 444178000503 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178000504 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 444178000505 CoA-transferase family III; Region: CoA_transf_3; pfam02515 444178000506 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 444178000507 putative active site [active] 444178000508 putative FMN binding site [chemical binding]; other site 444178000509 putative substrate binding site [chemical binding]; other site 444178000510 putative catalytic residue [active] 444178000511 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 444178000512 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 444178000513 DNA binding residues [nucleotide binding] 444178000514 sensor protein QseC; Provisional; Region: PRK10337 444178000515 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 444178000516 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 444178000517 dimer interface [polypeptide binding]; other site 444178000518 phosphorylation site [posttranslational modification] 444178000519 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 444178000520 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 444178000521 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 444178000522 active site 444178000523 phosphorylation site [posttranslational modification] 444178000524 intermolecular recognition site; other site 444178000525 dimerization interface [polypeptide binding]; other site 444178000526 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 444178000527 DNA binding site [nucleotide binding] 444178000528 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 444178000529 FlgD Ig-like domain; Region: FlgD_ig; cl15790 444178000530 ApbE family; Region: ApbE; cl00643 444178000531 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 444178000532 GAF domain; Region: GAF; cl15785 444178000533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444178000534 metal binding site [ion binding]; metal-binding site 444178000535 active site 444178000536 I-site; other site 444178000537 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444178000538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178000539 DNA-binding site [nucleotide binding]; DNA binding site 444178000540 FCD domain; Region: FCD; cl11656 444178000541 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 444178000542 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 444178000543 inhibitor site; inhibition site 444178000544 active site 444178000545 dimer interface [polypeptide binding]; other site 444178000546 catalytic residue [active] 444178000547 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 444178000548 MatE; Region: MatE; cl10513 444178000549 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 444178000550 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 444178000551 Cytochrome c; Region: Cytochrom_C; cl11414 444178000552 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178000553 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 444178000554 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 444178000555 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 444178000556 metal ion-dependent adhesion site (MIDAS); other site 444178000557 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 444178000558 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 444178000559 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 444178000560 CPxP motif; other site 444178000561 Domain of unknown function DUF59; Region: DUF59; cl00941 444178000562 Phospholipid methyltransferase; Region: PEMT; cl00763 444178000563 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 444178000564 nucleophilic elbow; other site 444178000565 catalytic triad; other site 444178000566 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 444178000567 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178000568 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178000569 Uncharacterized conserved protein [Function unknown]; Region: COG1262 444178000570 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 444178000571 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 444178000572 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 444178000573 ligand binding site [chemical binding]; other site 444178000574 flexible hinge region; other site 444178000575 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 444178000576 putative switch regulator; other site 444178000577 non-specific DNA interactions [nucleotide binding]; other site 444178000578 DNA binding site [nucleotide binding] 444178000579 sequence specific DNA binding site [nucleotide binding]; other site 444178000580 putative cAMP binding site [chemical binding]; other site 444178000581 Transcriptional regulators [Transcription]; Region: PurR; COG1609 444178000582 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 444178000583 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 444178000584 dimerization interface [polypeptide binding]; other site 444178000585 ligand binding site [chemical binding]; other site 444178000586 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 444178000587 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 444178000588 putative ligand binding site [chemical binding]; other site 444178000589 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 444178000590 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178000591 Walker A/P-loop; other site 444178000592 ATP binding site [chemical binding]; other site 444178000593 Q-loop/lid; other site 444178000594 ABC transporter signature motif; other site 444178000595 Walker B; other site 444178000596 D-loop; other site 444178000597 H-loop/switch region; other site 444178000598 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 444178000599 TM-ABC transporter signature motif; other site 444178000600 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 444178000601 classical (c) SDRs; Region: SDR_c; cd05233 444178000602 NAD(P) binding site [chemical binding]; other site 444178000603 active site 444178000604 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 444178000605 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 444178000606 N- and C-terminal domain interface [polypeptide binding]; other site 444178000607 putative active site [active] 444178000608 putative MgATP binding site [chemical binding]; other site 444178000609 catalytic site [active] 444178000610 metal binding site [ion binding]; metal-binding site 444178000611 carbohydrate binding site [chemical binding]; other site 444178000612 putative homodimer interface [polypeptide binding]; other site 444178000613 RES domain; Region: RES; cl02411 444178000614 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 444178000615 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 444178000616 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178000617 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 444178000618 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 444178000619 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 444178000620 4Fe-4S binding domain; Region: Fer4_5; pfam12801 444178000621 4Fe-4S binding domain; Region: Fer4_5; pfam12801 444178000622 nitrous-oxide reductase; Validated; Region: PRK02888 444178000623 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178000624 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 444178000625 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 444178000626 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178000627 Walker A/P-loop; other site 444178000628 ATP binding site [chemical binding]; other site 444178000629 Q-loop/lid; other site 444178000630 ABC transporter signature motif; other site 444178000631 Walker B; other site 444178000632 D-loop; other site 444178000633 H-loop/switch region; other site 444178000634 ABC-2 type transporter; Region: ABC2_membrane; cl11417 444178000635 NosL; Region: NosL; cl01769 444178000636 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 444178000637 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 444178000638 ligand binding site [chemical binding]; other site 444178000639 flexible hinge region; other site 444178000640 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 444178000641 putative switch regulator; other site 444178000642 non-specific DNA interactions [nucleotide binding]; other site 444178000643 DNA binding site [nucleotide binding] 444178000644 sequence specific DNA binding site [nucleotide binding]; other site 444178000645 putative cAMP binding site [chemical binding]; other site 444178000646 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178000647 NnrS protein; Region: NnrS; cl01258 444178000648 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 444178000649 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 444178000650 dimer interface [polypeptide binding]; other site 444178000651 conserved gate region; other site 444178000652 putative PBP binding loops; other site 444178000653 ABC-ATPase subunit interface; other site 444178000654 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 444178000655 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 444178000656 Walker A/P-loop; other site 444178000657 ATP binding site [chemical binding]; other site 444178000658 Q-loop/lid; other site 444178000659 ABC transporter signature motif; other site 444178000660 Walker B; other site 444178000661 D-loop; other site 444178000662 H-loop/switch region; other site 444178000663 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178000664 Peptidase family U32; Region: Peptidase_U32; cl03113 444178000665 Peptidase family U32; Region: Peptidase_U32; cl03113 444178000666 SCP-2 sterol transfer family; Region: SCP2; cl01225 444178000667 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 444178000668 Flavoprotein; Region: Flavoprotein; cl08021 444178000669 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 444178000670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178000671 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 444178000672 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 444178000673 nitrate reductase, beta subunit; Region: narH; TIGR01660 444178000674 4Fe-4S binding domain; Region: Fer4; cl02805 444178000675 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 444178000676 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 444178000677 [4Fe-4S] binding site [ion binding]; other site 444178000678 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 444178000679 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 444178000680 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 444178000681 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 444178000682 molybdopterin cofactor binding site; other site 444178000683 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 444178000684 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 444178000685 ligand binding site [chemical binding]; other site 444178000686 flexible hinge region; other site 444178000687 Helix-turn-helix domains; Region: HTH; cl00088 444178000688 Transcriptional regulators [Transcription]; Region: PurR; COG1609 444178000689 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444178000690 DNA binding site [nucleotide binding] 444178000691 domain linker motif; other site 444178000692 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 444178000693 ligand binding site [chemical binding]; other site 444178000694 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 444178000695 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 444178000696 dimer interface [polypeptide binding]; other site 444178000697 conserved gate region; other site 444178000698 putative PBP binding loops; other site 444178000699 ABC-ATPase subunit interface; other site 444178000700 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 444178000701 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 444178000702 Walker A/P-loop; other site 444178000703 ATP binding site [chemical binding]; other site 444178000704 Q-loop/lid; other site 444178000705 ABC transporter signature motif; other site 444178000706 Walker B; other site 444178000707 D-loop; other site 444178000708 H-loop/switch region; other site 444178000709 TOBE domain; Region: TOBE_2; cl01440 444178000710 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178000711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000712 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 444178000713 Transmembrane secretion effector; Region: MFS_3; pfam05977 444178000714 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 444178000715 putative substrate translocation pore; other site 444178000716 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 444178000717 catalytic residues [active] 444178000718 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 444178000719 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 444178000720 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 444178000721 Class I ribonucleotide reductase; Region: RNR_I; cd01679 444178000722 active site 444178000723 dimer interface [polypeptide binding]; other site 444178000724 catalytic residues [active] 444178000725 effector binding site; other site 444178000726 R2 peptide binding site; other site 444178000727 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 444178000728 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 444178000729 dimer interface [polypeptide binding]; other site 444178000730 putative radical transfer pathway; other site 444178000731 diiron center [ion binding]; other site 444178000732 tyrosyl radical; other site 444178000733 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 444178000734 Switch I; other site 444178000735 Switch II; other site 444178000736 Septum formation topological specificity factor MinE; Region: MinE; cl00538 444178000737 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 444178000738 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 444178000739 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178000740 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 444178000741 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 444178000742 Walker A/P-loop; other site 444178000743 ATP binding site [chemical binding]; other site 444178000744 Q-loop/lid; other site 444178000745 ABC transporter signature motif; other site 444178000746 Walker B; other site 444178000747 D-loop; other site 444178000748 H-loop/switch region; other site 444178000749 TOBE domain; Region: TOBE_2; cl01440 444178000750 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 444178000751 dimer interface [polypeptide binding]; other site 444178000752 conserved gate region; other site 444178000753 putative PBP binding loops; other site 444178000754 ABC-ATPase subunit interface; other site 444178000755 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 444178000756 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 444178000757 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 444178000758 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178000759 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178000760 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 444178000761 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 444178000762 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 444178000763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178000764 catalytic residue [active] 444178000765 HdeA/HdeB family; Region: HdeA; cl05752 444178000766 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 444178000767 Helix-turn-helix domains; Region: HTH; cl00088 444178000768 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178000769 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 444178000770 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 444178000771 Substrate binding site; other site 444178000772 Cupin domain; Region: Cupin_2; cl09118 444178000773 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 444178000774 putative active site pocket [active] 444178000775 cleavage site 444178000776 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 444178000777 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 444178000778 putative ion selectivity filter; other site 444178000779 putative pore gating glutamate residue; other site 444178000780 putative H+/Cl- coupling transport residue; other site 444178000781 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 444178000782 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; cl09108 444178000783 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 key...; Region: CBS_pair_IMPDH; cd04601 444178000784 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 the guanine...; Region: IMPDH; cd00381 444178000785 active site 444178000786 Cytochrome c [Energy production and conversion]; Region: COG3258 444178000787 Cytochrome c; Region: Cytochrom_C; cl11414 444178000788 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 444178000789 Helix-turn-helix domains; Region: HTH; cl00088 444178000790 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 444178000791 dimerization interface [polypeptide binding]; other site 444178000792 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 444178000793 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 444178000794 tetramer interface [polypeptide binding]; other site 444178000795 heme binding pocket [chemical binding]; other site 444178000796 NADPH binding site [chemical binding]; other site 444178000797 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 444178000798 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 444178000799 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; cl16911 444178000800 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 444178000801 CoenzymeA binding site [chemical binding]; other site 444178000802 subunit interaction site [polypeptide binding]; other site 444178000803 PHB binding site; other site 444178000804 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 444178000805 GMP synthase; Reviewed; Region: guaA; PRK00074 444178000806 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 444178000807 AMP/PPi binding site [chemical binding]; other site 444178000808 candidate oxyanion hole; other site 444178000809 catalytic triad [active] 444178000810 potential glutamine specificity residues [chemical binding]; other site 444178000811 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 444178000812 ATP Binding subdomain [chemical binding]; other site 444178000813 Ligand Binding sites [chemical binding]; other site 444178000814 Dimerization subdomain; other site 444178000815 Fe2+ transport protein; Region: Iron_transport; cl01377 444178000816 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178000817 Iron permease FTR1 family; Region: FTR1; cl00475 444178000818 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 444178000819 4Fe-4S binding domain; Region: Fer4_5; pfam12801 444178000820 putative phosphoketolase; Provisional; Region: PRK05261 444178000821 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 444178000822 TPP-binding site; other site 444178000823 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 444178000824 XFP C-terminal domain; Region: XFP_C; pfam09363 444178000825 Acetokinase family; Region: Acetate_kinase; cl01029 444178000826 acetate kinase; Region: ackA; TIGR00016 444178000827 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 444178000828 TM-ABC transporter signature motif; other site 444178000829 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 444178000830 TM-ABC transporter signature motif; other site 444178000831 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 444178000832 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 444178000833 Walker A/P-loop; other site 444178000834 ATP binding site [chemical binding]; other site 444178000835 Q-loop/lid; other site 444178000836 ABC transporter signature motif; other site 444178000837 Walker B; other site 444178000838 D-loop; other site 444178000839 H-loop/switch region; other site 444178000840 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 444178000841 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 444178000842 Walker A/P-loop; other site 444178000843 ATP binding site [chemical binding]; other site 444178000844 Q-loop/lid; other site 444178000845 ABC transporter signature motif; other site 444178000846 Walker B; other site 444178000847 D-loop; other site 444178000848 H-loop/switch region; other site 444178000849 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 444178000850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000851 NAD(P) binding site [chemical binding]; other site 444178000852 active site 444178000853 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 444178000854 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 444178000855 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 444178000856 shikimate binding site; other site 444178000857 NAD(P) binding site [chemical binding]; other site 444178000858 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 444178000859 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 444178000860 NAD binding site [chemical binding]; other site 444178000861 catalytic Zn binding site [ion binding]; other site 444178000862 substrate binding site [chemical binding]; other site 444178000863 structural Zn binding site [ion binding]; other site 444178000864 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178000865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178000867 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178000868 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 444178000869 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178000870 Walker A/P-loop; other site 444178000871 ATP binding site [chemical binding]; other site 444178000872 Q-loop/lid; other site 444178000873 ABC transporter signature motif; other site 444178000874 Walker B; other site 444178000875 D-loop; other site 444178000876 H-loop/switch region; other site 444178000877 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178000878 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 444178000879 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178000880 Walker A/P-loop; other site 444178000881 ATP binding site [chemical binding]; other site 444178000882 Q-loop/lid; other site 444178000883 ABC transporter signature motif; other site 444178000884 Walker B; other site 444178000885 D-loop; other site 444178000886 H-loop/switch region; other site 444178000887 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178000888 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 444178000889 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 444178000890 inhibitor site; inhibition site 444178000891 active site 444178000892 dimer interface [polypeptide binding]; other site 444178000893 catalytic residue [active] 444178000894 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 444178000895 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 444178000896 dimer interface [polypeptide binding]; other site 444178000897 conserved gate region; other site 444178000898 putative PBP binding loops; other site 444178000899 ABC-ATPase subunit interface; other site 444178000900 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 444178000901 dimer interface [polypeptide binding]; other site 444178000902 conserved gate region; other site 444178000903 putative PBP binding loops; other site 444178000904 ABC-ATPase subunit interface; other site 444178000905 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 444178000906 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 444178000907 Transcriptional regulators [Transcription]; Region: FadR; COG2186 444178000908 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178000909 DNA-binding site [nucleotide binding]; DNA binding site 444178000910 FCD domain; Region: FCD; cl11656 444178000911 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 444178000912 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 444178000913 putative active site cavity [active] 444178000914 N-acetylmannosamine kinase; Provisional; Region: PRK05082 444178000915 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 444178000916 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 444178000917 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 444178000918 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 444178000919 ligand binding site [chemical binding]; other site 444178000920 flexible hinge region; other site 444178000921 Helix-turn-helix domains; Region: HTH; cl00088 444178000922 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444178000923 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 444178000924 DNA binding residues [nucleotide binding] 444178000925 dimerization interface [polypeptide binding]; other site 444178000926 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 444178000927 Chain length determinant protein; Region: Wzz; cl15801 444178000928 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 444178000929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178000930 G3 box; other site 444178000931 Switch II region; other site 444178000932 G4 box; other site 444178000933 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 444178000934 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 444178000935 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 444178000936 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 444178000937 NADP binding site [chemical binding]; other site 444178000938 active site 444178000939 putative substrate binding site [chemical binding]; other site 444178000940 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 444178000941 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 444178000942 NADP-binding site; other site 444178000943 homotetramer interface [polypeptide binding]; other site 444178000944 substrate binding site [chemical binding]; other site 444178000945 homodimer interface [polypeptide binding]; other site 444178000946 active site 444178000947 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 444178000948 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 444178000949 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 444178000950 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 444178000951 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 444178000952 putative ADP-binding pocket [chemical binding]; other site 444178000953 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178000954 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 444178000955 putative active site [active] 444178000956 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 444178000957 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 444178000958 putative metal binding site; other site 444178000959 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 444178000960 active site 444178000961 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 444178000962 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 444178000963 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 444178000964 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 444178000965 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444178000966 catalytic residue [active] 444178000967 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 444178000968 extended (e) SDRs; Region: SDR_e; cd08946 444178000969 NAD(P) binding site [chemical binding]; other site 444178000970 active site 444178000971 substrate binding site [chemical binding]; other site 444178000972 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 444178000973 M28 Zn-Peptidases; Region: M28_like_3; cd05644 444178000974 active site 444178000975 metal binding site [ion binding]; metal-binding site 444178000976 Cupin domain; Region: Cupin_2; cl09118 444178000977 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 444178000978 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; cl16911 444178000979 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 444178000980 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 444178000981 active site 444178000982 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 444178000983 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 444178000984 glycerol kinase; Provisional; Region: glpK; PRK00047 444178000985 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 444178000986 N- and C-terminal domain interface [polypeptide binding]; other site 444178000987 active site 444178000988 MgATP binding site [chemical binding]; other site 444178000989 catalytic site [active] 444178000990 metal binding site [ion binding]; metal-binding site 444178000991 glycerol binding site [chemical binding]; other site 444178000992 homotetramer interface [polypeptide binding]; other site 444178000993 homodimer interface [polypeptide binding]; other site 444178000994 FBP binding site [chemical binding]; other site 444178000995 protein IIAGlc interface [polypeptide binding]; other site 444178000996 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 444178000997 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 444178000998 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 444178000999 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 444178001000 active site 444178001001 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 444178001002 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 444178001003 dimer interface [polypeptide binding]; other site 444178001004 active site 444178001005 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 444178001006 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 444178001007 NAD binding site [chemical binding]; other site 444178001008 homodimer interface [polypeptide binding]; other site 444178001009 homotetramer interface [polypeptide binding]; other site 444178001010 active site 444178001011 Protein of unknown function (DUF808); Region: DUF808; cl01002 444178001012 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 444178001013 dimerization interface [polypeptide binding]; other site 444178001014 putative DNA binding site [nucleotide binding]; other site 444178001015 putative Zn2+ binding site [ion binding]; other site 444178001016 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 444178001017 Predicted transporter component [General function prediction only]; Region: COG2391 444178001018 Predicted transporter component [General function prediction only]; Region: COG2391 444178001019 Sulphur transport; Region: Sulf_transp; cl01018 444178001020 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444178001021 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178001022 DNA-binding site [nucleotide binding]; DNA binding site 444178001023 FCD domain; Region: FCD; cl11656 444178001024 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 444178001025 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 444178001026 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 444178001027 Helix-turn-helix domains; Region: HTH; cl00088 444178001028 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 444178001029 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 444178001030 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178001031 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 444178001032 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 444178001033 Walker A/P-loop; other site 444178001034 ATP binding site [chemical binding]; other site 444178001035 Q-loop/lid; other site 444178001036 ABC transporter signature motif; other site 444178001037 Walker B; other site 444178001038 D-loop; other site 444178001039 H-loop/switch region; other site 444178001040 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 444178001041 ABC-2 type transporter; Region: ABC2_membrane; cl11417 444178001042 Cupin domain; Region: Cupin_2; cl09118 444178001043 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 444178001044 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 444178001045 dimer interface [polypeptide binding]; other site 444178001046 conserved gate region; other site 444178001047 putative PBP binding loops; other site 444178001048 ABC-ATPase subunit interface; other site 444178001049 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 444178001050 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 444178001051 Walker A/P-loop; other site 444178001052 ATP binding site [chemical binding]; other site 444178001053 Q-loop/lid; other site 444178001054 ABC transporter signature motif; other site 444178001055 Walker B; other site 444178001056 D-loop; other site 444178001057 H-loop/switch region; other site 444178001058 NMT1-like family; Region: NMT1_2; cl15260 444178001059 NMT1/THI5 like; Region: NMT1; pfam09084 444178001060 Helix-turn-helix domains; Region: HTH; cl00088 444178001061 Transcriptional regulators [Transcription]; Region: MarR; COG1846 444178001062 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 444178001063 putative substrate translocation pore; other site 444178001064 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 444178001065 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 444178001066 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178001067 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178001068 osmolarity response regulator; Provisional; Region: ompR; PRK09468 444178001069 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 444178001070 active site 444178001071 phosphorylation site [posttranslational modification] 444178001072 intermolecular recognition site; other site 444178001073 dimerization interface [polypeptide binding]; other site 444178001074 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 444178001075 DNA binding site [nucleotide binding] 444178001076 Protein of unknown function, DUF488; Region: DUF488; cl01246 444178001077 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 444178001078 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178001079 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 444178001080 Helix-turn-helix domains; Region: HTH; cl00088 444178001081 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178001082 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 444178001083 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178001084 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 444178001085 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 444178001086 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 444178001087 homoserine O-succinyltransferase; Provisional; Region: PRK05368 444178001088 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 444178001089 proposed active site lysine [active] 444178001090 conserved cys residue [active] 444178001091 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 444178001092 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 444178001093 active site 444178001094 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 444178001095 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 444178001096 dimer interface [polypeptide binding]; other site 444178001097 active site 444178001098 CoA binding pocket [chemical binding]; other site 444178001099 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 444178001100 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 444178001101 inhibitor-cofactor binding pocket; inhibition site 444178001102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178001103 catalytic residue [active] 444178001104 AAA domain; Region: AAA_26; pfam13500 444178001105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178001106 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 444178001107 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 444178001108 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444178001109 catalytic residue [active] 444178001110 biotin synthase; Region: bioB; TIGR00433 444178001111 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 444178001112 FeS/SAM binding site; other site 444178001113 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 444178001114 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 444178001115 MPT binding site; other site 444178001116 trimer interface [polypeptide binding]; other site 444178001117 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 444178001118 dimer interface [polypeptide binding]; other site 444178001119 FMN binding site [chemical binding]; other site 444178001120 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 444178001121 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 444178001122 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 444178001123 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 444178001124 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 444178001125 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 444178001126 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 444178001127 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 444178001128 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 444178001129 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 444178001130 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 444178001131 Predicted transcriptional regulators [Transcription]; Region: COG1510 444178001132 Helix-turn-helix domains; Region: HTH; cl00088 444178001133 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 444178001134 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178001135 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 444178001136 Walker A/P-loop; other site 444178001137 ATP binding site [chemical binding]; other site 444178001138 Q-loop/lid; other site 444178001139 ABC transporter signature motif; other site 444178001140 Walker B; other site 444178001141 D-loop; other site 444178001142 H-loop/switch region; other site 444178001143 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 444178001144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178001145 Walker A/P-loop; other site 444178001146 ATP binding site [chemical binding]; other site 444178001147 Q-loop/lid; other site 444178001148 ABC transporter signature motif; other site 444178001149 Walker B; other site 444178001150 D-loop; other site 444178001151 H-loop/switch region; other site 444178001152 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 444178001153 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 444178001154 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 444178001155 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 444178001156 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 444178001157 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 444178001158 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178001159 DNA-binding site [nucleotide binding]; DNA binding site 444178001160 UTRA domain; Region: UTRA; cl01230 444178001161 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 444178001162 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 444178001163 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 444178001164 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178001165 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 444178001166 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 444178001167 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 444178001168 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 444178001169 dimer interface [polypeptide binding]; other site 444178001170 conserved gate region; other site 444178001171 putative PBP binding loops; other site 444178001172 ABC-ATPase subunit interface; other site 444178001173 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178001174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001175 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 444178001176 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 444178001177 Walker A/P-loop; other site 444178001178 ATP binding site [chemical binding]; other site 444178001179 Q-loop/lid; other site 444178001180 ABC transporter signature motif; other site 444178001181 Walker B; other site 444178001182 D-loop; other site 444178001183 H-loop/switch region; other site 444178001184 TOBE domain; Region: TOBE_2; cl01440 444178001185 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 444178001186 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 444178001187 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 444178001188 tetramer interface [polypeptide binding]; other site 444178001189 TPP-binding site [chemical binding]; other site 444178001190 heterodimer interface [polypeptide binding]; other site 444178001191 phosphorylation loop region [posttranslational modification] 444178001192 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 444178001193 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 444178001194 alpha subunit interface [polypeptide binding]; other site 444178001195 TPP binding site [chemical binding]; other site 444178001196 heterodimer interface [polypeptide binding]; other site 444178001197 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 444178001198 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 444178001199 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 444178001200 E3 interaction surface; other site 444178001201 lipoyl attachment site [posttranslational modification]; other site 444178001202 e3 binding domain; Region: E3_binding; pfam02817 444178001203 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 444178001204 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 444178001205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178001206 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 444178001207 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 444178001208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178001209 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 444178001210 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 444178001211 homodimer interface [polypeptide binding]; other site 444178001212 homotetramer interface [polypeptide binding]; other site 444178001213 active site pocket [active] 444178001214 cleavage site 444178001215 benzoate transport; Region: 2A0115; TIGR00895 444178001216 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 444178001217 putative substrate translocation pore; other site 444178001218 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 444178001219 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 444178001220 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178001221 Walker A/P-loop; other site 444178001222 ATP binding site [chemical binding]; other site 444178001223 Q-loop/lid; other site 444178001224 ABC transporter signature motif; other site 444178001225 Walker B; other site 444178001226 D-loop; other site 444178001227 H-loop/switch region; other site 444178001228 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178001229 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178001230 Walker A/P-loop; other site 444178001231 ATP binding site [chemical binding]; other site 444178001232 Q-loop/lid; other site 444178001233 ABC transporter signature motif; other site 444178001234 Walker B; other site 444178001235 D-loop; other site 444178001236 H-loop/switch region; other site 444178001237 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178001238 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 444178001239 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 444178001240 dimer interface [polypeptide binding]; other site 444178001241 conserved gate region; other site 444178001242 ABC-ATPase subunit interface; other site 444178001243 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 444178001244 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 444178001245 dimer interface [polypeptide binding]; other site 444178001246 conserved gate region; other site 444178001247 putative PBP binding loops; other site 444178001248 ABC-ATPase subunit interface; other site 444178001249 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 444178001250 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 444178001251 peptide binding site [polypeptide binding]; other site 444178001252 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 444178001253 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 444178001254 peptide binding site [polypeptide binding]; other site 444178001255 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178001256 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 444178001257 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 444178001258 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 444178001259 NAD binding site [chemical binding]; other site 444178001260 putative substrate binding site 2 [chemical binding]; other site 444178001261 putative substrate binding site 1 [chemical binding]; other site 444178001262 active site 444178001263 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 444178001264 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 444178001265 NAD binding site [chemical binding]; other site 444178001266 homodimer interface [polypeptide binding]; other site 444178001267 active site 444178001268 substrate binding site [chemical binding]; other site 444178001269 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 444178001270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001271 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 444178001272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001273 Protein of unknown function (DUF995); Region: DUF995; pfam06191 444178001274 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 444178001275 Protein of unknown function (DUF995); Region: DUF995; pfam06191 444178001276 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 444178001277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444178001278 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178001279 Helix-turn-helix domains; Region: HTH; cl00088 444178001280 SEC-C motif; Region: SEC-C; pfam02810 444178001281 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444178001282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444178001283 Helix-turn-helix domains; Region: HTH; cl00088 444178001284 Helix-turn-helix domains; Region: HTH; cl00088 444178001285 Integrase core domain; Region: rve_3; cl15866 444178001286 Integrase core domain; Region: rve; cl01316 444178001287 PemK-like protein; Region: PemK; cl00995 444178001288 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 444178001289 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 444178001290 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178001291 Walker A/P-loop; other site 444178001292 ATP binding site [chemical binding]; other site 444178001293 Q-loop/lid; other site 444178001294 ABC transporter signature motif; other site 444178001295 Walker B; other site 444178001296 D-loop; other site 444178001297 H-loop/switch region; other site 444178001298 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178001299 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 444178001300 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178001301 Walker A/P-loop; other site 444178001302 ATP binding site [chemical binding]; other site 444178001303 Q-loop/lid; other site 444178001304 ABC transporter signature motif; other site 444178001305 Walker B; other site 444178001306 D-loop; other site 444178001307 H-loop/switch region; other site 444178001308 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178001309 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 444178001310 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 444178001311 dimer interface [polypeptide binding]; other site 444178001312 conserved gate region; other site 444178001313 putative PBP binding loops; other site 444178001314 ABC-ATPase subunit interface; other site 444178001315 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 444178001316 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 444178001317 dimer interface [polypeptide binding]; other site 444178001318 conserved gate region; other site 444178001319 putative PBP binding loops; other site 444178001320 ABC-ATPase subunit interface; other site 444178001321 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 444178001322 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 444178001323 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 444178001324 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 444178001325 active site 444178001326 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 444178001327 Helix-turn-helix domains; Region: HTH; cl00088 444178001328 Winged helix-turn helix; Region: HTH_29; pfam13551 444178001329 Helix-turn-helix domains; Region: HTH; cl00088 444178001330 Integrase core domain; Region: rve; cl01316 444178001331 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178001332 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178001333 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 444178001334 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444178001335 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 444178001336 Integrase core domain; Region: rve; cl01316 444178001337 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444178001338 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 444178001339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444178001340 Helix-turn-helix domains; Region: HTH; cl00088 444178001341 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 444178001342 putative deacylase active site [active] 444178001343 Helix-turn-helix domains; Region: HTH; cl00088 444178001344 Predicted transcriptional regulator [Transcription]; Region: COG1959 444178001345 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 444178001346 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 444178001347 heme binding site [chemical binding]; other site 444178001348 ferroxidase pore; other site 444178001349 ferroxidase diiron center [ion binding]; other site 444178001350 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 444178001351 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 444178001352 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 444178001353 FeS/SAM binding site; other site 444178001354 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 444178001355 putative ligand binding site [chemical binding]; other site 444178001356 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 444178001357 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 444178001358 Walker A/P-loop; other site 444178001359 ATP binding site [chemical binding]; other site 444178001360 Q-loop/lid; other site 444178001361 ABC transporter signature motif; other site 444178001362 Walker B; other site 444178001363 D-loop; other site 444178001364 H-loop/switch region; other site 444178001365 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 444178001366 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 444178001367 TM-ABC transporter signature motif; other site 444178001368 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 444178001369 TM-ABC transporter signature motif; other site 444178001370 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 444178001371 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 444178001372 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 444178001373 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 444178001374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001375 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 444178001376 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 444178001377 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 444178001378 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 444178001379 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 444178001380 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 444178001381 catalytic residues [active] 444178001382 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 444178001383 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 444178001384 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 444178001385 ATP binding site [chemical binding]; other site 444178001386 putative Mg++ binding site [ion binding]; other site 444178001387 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 444178001388 nucleotide binding region [chemical binding]; other site 444178001389 ATP-binding site [chemical binding]; other site 444178001390 TRCF domain; Region: TRCF; cl04088 444178001391 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 444178001392 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 444178001393 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 444178001394 generic binding surface II; other site 444178001395 ssDNA binding site; other site 444178001396 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 444178001397 ATP binding site [chemical binding]; other site 444178001398 putative Mg++ binding site [ion binding]; other site 444178001399 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 444178001400 nucleotide binding region [chemical binding]; other site 444178001401 ATP-binding site [chemical binding]; other site 444178001402 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 444178001403 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 444178001404 glutaminase active site [active] 444178001405 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 444178001406 dimer interface [polypeptide binding]; other site 444178001407 active site 444178001408 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 444178001409 dimer interface [polypeptide binding]; other site 444178001410 active site 444178001411 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 444178001412 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 444178001413 Substrate binding site; other site 444178001414 Mg++ binding site; other site 444178001415 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 444178001416 active site 444178001417 substrate binding site [chemical binding]; other site 444178001418 CoA binding site [chemical binding]; other site 444178001419 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 444178001420 Predicted integral membrane protein [Function unknown]; Region: COG0392 444178001421 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 444178001422 Uncharacterized conserved protein [Function unknown]; Region: COG2898 444178001423 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 444178001424 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 444178001425 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 444178001426 BA14K-like protein; Region: BA14K; pfam07886 444178001427 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 444178001428 PAS domain; Region: PAS_9; pfam13426 444178001429 putative active site [active] 444178001430 heme pocket [chemical binding]; other site 444178001431 PAS fold; Region: PAS_3; pfam08447 444178001432 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 444178001433 putative active site [active] 444178001434 heme pocket [chemical binding]; other site 444178001435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 444178001436 Histidine kinase; Region: HisKA_2; cl06527 444178001437 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 444178001438 EamA-like transporter family; Region: EamA; cl01037 444178001439 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 444178001440 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 444178001441 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 444178001442 Mg2+ binding site [ion binding]; other site 444178001443 G-X-G motif; other site 444178001444 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 444178001445 anchoring element; other site 444178001446 dimer interface [polypeptide binding]; other site 444178001447 ATP binding site [chemical binding]; other site 444178001448 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 444178001449 active site 444178001450 metal binding site [ion binding]; metal-binding site 444178001451 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 444178001452 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 444178001453 Amidase; Region: Amidase; cl11426 444178001454 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 444178001455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 444178001456 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 444178001457 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 444178001458 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 444178001459 active site 444178001460 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 444178001461 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 444178001462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001463 dihydroorotase; Validated; Region: PRK09059 444178001464 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 444178001465 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 444178001466 active site 444178001467 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 444178001468 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 444178001469 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 444178001470 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 444178001471 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 444178001472 active site 444178001473 interdomain interaction site; other site 444178001474 putative metal-binding site [ion binding]; other site 444178001475 nucleotide binding site [chemical binding]; other site 444178001476 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 444178001477 domain I; other site 444178001478 DNA binding groove [nucleotide binding] 444178001479 phosphate binding site [ion binding]; other site 444178001480 domain II; other site 444178001481 domain III; other site 444178001482 nucleotide binding site [chemical binding]; other site 444178001483 catalytic site [active] 444178001484 domain IV; other site 444178001485 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 444178001486 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 444178001487 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 444178001488 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 444178001489 ribonuclease R; Region: RNase_R; TIGR02063 444178001490 RNB domain; Region: RNB; pfam00773 444178001491 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 444178001492 RNA binding site [nucleotide binding]; other site 444178001493 Protein of unknown function (DUF983); Region: DUF983; cl02211 444178001494 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 444178001495 putative substrate translocation pore; other site 444178001496 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 444178001497 response regulator PleD; Reviewed; Region: pleD; PRK09581 444178001498 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 444178001499 active site 444178001500 phosphorylation site [posttranslational modification] 444178001501 intermolecular recognition site; other site 444178001502 dimerization interface [polypeptide binding]; other site 444178001503 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 444178001504 active site 444178001505 phosphorylation site [posttranslational modification] 444178001506 intermolecular recognition site; other site 444178001507 dimerization interface [polypeptide binding]; other site 444178001508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444178001509 metal binding site [ion binding]; metal-binding site 444178001510 active site 444178001511 I-site; other site 444178001512 Response regulator receiver domain; Region: Response_reg; pfam00072 444178001513 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 444178001514 active site 444178001515 phosphorylation site [posttranslational modification] 444178001516 intermolecular recognition site; other site 444178001517 dimerization interface [polypeptide binding]; other site 444178001518 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 444178001519 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 444178001520 DNA polymerase IV; Provisional; Region: PRK02794 444178001521 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 444178001522 active site 444178001523 DNA binding site [nucleotide binding] 444178001524 Uncharacterized conserved protein [Function unknown]; Region: COG3391 444178001525 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 444178001526 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; cl12126 444178001527 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 444178001528 active site 444178001529 catalytic site [active] 444178001530 substrate binding site [chemical binding]; other site 444178001531 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 444178001532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444178001533 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 444178001534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001535 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178001536 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 444178001537 substrate binding pocket [chemical binding]; other site 444178001538 membrane-bound complex binding site; other site 444178001539 hinge residues; other site 444178001540 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178001541 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 444178001542 substrate binding pocket [chemical binding]; other site 444178001543 membrane-bound complex binding site; other site 444178001544 hinge residues; other site 444178001545 Helix-turn-helix domains; Region: HTH; cl00088 444178001546 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 444178001547 AsnC family; Region: AsnC_trans_reg; pfam01037 444178001548 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 444178001549 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 444178001550 active site 444178001551 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 444178001552 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 444178001553 dimer interface [polypeptide binding]; other site 444178001554 active site 444178001555 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 444178001556 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 444178001557 Helix-turn-helix domains; Region: HTH; cl00088 444178001558 Bacterial transcriptional regulator; Region: IclR; pfam01614 444178001559 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 444178001560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001562 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 444178001563 Helix-turn-helix domains; Region: HTH; cl00088 444178001564 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178001565 dimerization interface [polypeptide binding]; other site 444178001566 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 444178001567 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 444178001568 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 444178001569 heterodimer interface [polypeptide binding]; other site 444178001570 active site 444178001571 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 444178001572 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 444178001573 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 444178001574 TM-ABC transporter signature motif; other site 444178001575 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 444178001576 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 444178001577 Walker A/P-loop; other site 444178001578 ATP binding site [chemical binding]; other site 444178001579 Q-loop/lid; other site 444178001580 ABC transporter signature motif; other site 444178001581 Walker B; other site 444178001582 D-loop; other site 444178001583 H-loop/switch region; other site 444178001584 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 444178001585 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 444178001586 Walker A/P-loop; other site 444178001587 ATP binding site [chemical binding]; other site 444178001588 Q-loop/lid; other site 444178001589 ABC transporter signature motif; other site 444178001590 Walker B; other site 444178001591 D-loop; other site 444178001592 H-loop/switch region; other site 444178001593 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 444178001594 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 444178001595 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 444178001596 active site 444178001597 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 444178001598 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 444178001599 active site 444178001600 dimer interface [polypeptide binding]; other site 444178001601 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 444178001602 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178001603 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 444178001604 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 444178001605 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 444178001606 dimer interface [polypeptide binding]; other site 444178001607 conserved gate region; other site 444178001608 ABC-ATPase subunit interface; other site 444178001609 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 444178001610 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 444178001611 Walker A/P-loop; other site 444178001612 ATP binding site [chemical binding]; other site 444178001613 Q-loop/lid; other site 444178001614 ABC transporter signature motif; other site 444178001615 Walker B; other site 444178001616 D-loop; other site 444178001617 H-loop/switch region; other site 444178001618 TOBE domain; Region: TOBE_2; cl01440 444178001619 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; cl15357 444178001620 transmembrane helices; other site 444178001621 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; cl15357 444178001622 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 444178001623 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; cl15357 444178001624 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 444178001625 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 444178001626 nucleoside/Zn binding site; other site 444178001627 dimer interface [polypeptide binding]; other site 444178001628 catalytic motif [active] 444178001629 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 444178001630 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 444178001631 homodimer interface [polypeptide binding]; other site 444178001632 substrate-cofactor binding pocket; other site 444178001633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178001634 catalytic residue [active] 444178001635 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 444178001636 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 444178001637 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 444178001638 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 444178001639 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 444178001640 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178001641 NAD binding site [chemical binding]; other site 444178001642 catalytic residues [active] 444178001643 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 444178001644 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 444178001645 putative ligand binding residues [chemical binding]; other site 444178001646 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 444178001647 ABC-ATPase subunit interface; other site 444178001648 dimer interface [polypeptide binding]; other site 444178001649 putative PBP binding regions; other site 444178001650 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 444178001651 ABC-ATPase subunit interface; other site 444178001652 dimer interface [polypeptide binding]; other site 444178001653 putative PBP binding regions; other site 444178001654 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 444178001655 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 444178001656 Walker A/P-loop; other site 444178001657 ATP binding site [chemical binding]; other site 444178001658 Q-loop/lid; other site 444178001659 ABC transporter signature motif; other site 444178001660 Walker B; other site 444178001661 D-loop; other site 444178001662 H-loop/switch region; other site 444178001663 Helix-turn-helix domains; Region: HTH; cl00088 444178001664 5-oxoprolinase; Region: PLN02666 444178001665 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 444178001666 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 444178001667 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 444178001668 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178001669 substrate binding pocket [chemical binding]; other site 444178001670 membrane-bound complex binding site; other site 444178001671 hinge residues; other site 444178001672 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 444178001673 dimer interface [polypeptide binding]; other site 444178001674 conserved gate region; other site 444178001675 putative PBP binding loops; other site 444178001676 ABC-ATPase subunit interface; other site 444178001677 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 444178001678 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178001679 Walker A/P-loop; other site 444178001680 ATP binding site [chemical binding]; other site 444178001681 Q-loop/lid; other site 444178001682 ABC transporter signature motif; other site 444178001683 Walker B; other site 444178001684 D-loop; other site 444178001685 H-loop/switch region; other site 444178001686 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 444178001687 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 444178001688 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; cl16911 444178001689 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 444178001690 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 444178001691 Walker A/P-loop; other site 444178001692 ATP binding site [chemical binding]; other site 444178001693 Q-loop/lid; other site 444178001694 ABC transporter signature motif; other site 444178001695 Walker B; other site 444178001696 D-loop; other site 444178001697 H-loop/switch region; other site 444178001698 TOBE domain; Region: TOBE_2; cl01440 444178001699 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 444178001700 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 444178001701 dimer interface [polypeptide binding]; other site 444178001702 conserved gate region; other site 444178001703 putative PBP binding loops; other site 444178001704 ABC-ATPase subunit interface; other site 444178001705 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 444178001706 dimer interface [polypeptide binding]; other site 444178001707 conserved gate region; other site 444178001708 putative PBP binding loops; other site 444178001709 ABC-ATPase subunit interface; other site 444178001710 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 444178001711 active site 444178001712 homopentamer interface [polypeptide binding]; other site 444178001713 dimer interface [polypeptide binding]; other site 444178001714 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 444178001715 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 444178001716 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 444178001717 dimer interface [polypeptide binding]; other site 444178001718 conserved gate region; other site 444178001719 putative PBP binding loops; other site 444178001720 ABC-ATPase subunit interface; other site 444178001721 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 444178001722 dimer interface [polypeptide binding]; other site 444178001723 conserved gate region; other site 444178001724 putative PBP binding loops; other site 444178001725 ABC-ATPase subunit interface; other site 444178001726 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178001727 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 444178001728 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 444178001729 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 444178001730 Walker A/P-loop; other site 444178001731 ATP binding site [chemical binding]; other site 444178001732 Q-loop/lid; other site 444178001733 ABC transporter signature motif; other site 444178001734 Walker B; other site 444178001735 D-loop; other site 444178001736 H-loop/switch region; other site 444178001737 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 444178001738 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 444178001739 E-class dimer interface [polypeptide binding]; other site 444178001740 P-class dimer interface [polypeptide binding]; other site 444178001741 active site 444178001742 Cu2+ binding site [ion binding]; other site 444178001743 Zn2+ binding site [ion binding]; other site 444178001744 multicopper oxidase; Provisional; Region: PRK10965 444178001745 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178001746 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178001747 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178001748 metabolite-proton symporter; Region: 2A0106; TIGR00883 444178001749 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 444178001750 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 444178001751 dimer interface [polypeptide binding]; other site 444178001752 decamer (pentamer of dimers) interface [polypeptide binding]; other site 444178001753 catalytic triad [active] 444178001754 peroxidatic and resolving cysteines [active] 444178001755 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 444178001756 Helix-turn-helix domains; Region: HTH; cl00088 444178001757 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 444178001758 dimerization interface [polypeptide binding]; other site 444178001759 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 444178001760 HTH DNA binding domain; Region: HTH_13; pfam11972 444178001761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001762 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 444178001763 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 444178001764 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 444178001765 PYR/PP interface [polypeptide binding]; other site 444178001766 dimer interface [polypeptide binding]; other site 444178001767 TPP binding site [chemical binding]; other site 444178001768 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 444178001769 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 444178001770 TPP-binding site [chemical binding]; other site 444178001771 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 444178001772 KduI/IolB family; Region: KduI; cl01508 444178001773 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 444178001774 active site 444178001775 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 444178001776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178001777 Walker A/P-loop; other site 444178001778 ATP binding site [chemical binding]; other site 444178001779 Q-loop/lid; other site 444178001780 ABC transporter signature motif; other site 444178001781 Walker B; other site 444178001782 D-loop; other site 444178001783 H-loop/switch region; other site 444178001784 TOBE domain; Region: TOBE_2; cl01440 444178001785 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 444178001786 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 444178001787 dimer interface [polypeptide binding]; other site 444178001788 conserved gate region; other site 444178001789 putative PBP binding loops; other site 444178001790 ABC-ATPase subunit interface; other site 444178001791 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 444178001792 dimer interface [polypeptide binding]; other site 444178001793 conserved gate region; other site 444178001794 putative PBP binding loops; other site 444178001795 ABC-ATPase subunit interface; other site 444178001796 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 444178001797 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178001798 glycine dehydrogenase; Provisional; Region: PRK05367 444178001799 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 444178001800 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444178001801 catalytic residue [active] 444178001802 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 444178001803 tetramer interface [polypeptide binding]; other site 444178001804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178001805 catalytic residue [active] 444178001806 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 444178001807 lipoyl attachment site [posttranslational modification]; other site 444178001808 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 444178001809 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 444178001810 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 444178001811 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 444178001812 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178001813 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 444178001814 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 444178001815 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 444178001816 putative active site [active] 444178001817 N-formylglutamate amidohydrolase; Region: FGase; cl01522 444178001818 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 444178001819 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 444178001820 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 444178001821 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 444178001822 putative active site [active] 444178001823 metal binding site [ion binding]; metal-binding site 444178001824 BA14K-like protein; Region: BA14K; pfam07886 444178001825 EamA-like transporter family; Region: EamA; cl01037 444178001826 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 444178001827 dimer interface [polypeptide binding]; other site 444178001828 conserved gate region; other site 444178001829 putative PBP binding loops; other site 444178001830 ABC-ATPase subunit interface; other site 444178001831 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 444178001832 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 444178001833 Walker A/P-loop; other site 444178001834 ATP binding site [chemical binding]; other site 444178001835 Q-loop/lid; other site 444178001836 ABC transporter signature motif; other site 444178001837 Walker B; other site 444178001838 D-loop; other site 444178001839 H-loop/switch region; other site 444178001840 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 444178001841 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 444178001842 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 444178001843 dimer interface [polypeptide binding]; other site 444178001844 active site 444178001845 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444178001846 substrate binding site [chemical binding]; other site 444178001847 catalytic residue [active] 444178001848 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 444178001849 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 444178001850 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 444178001851 putative active site [active] 444178001852 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 444178001853 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 444178001854 Walker A/P-loop; other site 444178001855 ATP binding site [chemical binding]; other site 444178001856 Q-loop/lid; other site 444178001857 ABC transporter signature motif; other site 444178001858 Walker B; other site 444178001859 D-loop; other site 444178001860 H-loop/switch region; other site 444178001861 TOBE domain; Region: TOBE_2; cl01440 444178001862 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 444178001863 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178001864 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 444178001865 dimer interface [polypeptide binding]; other site 444178001866 conserved gate region; other site 444178001867 putative PBP binding loops; other site 444178001868 ABC-ATPase subunit interface; other site 444178001869 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 444178001870 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 444178001871 dimer interface [polypeptide binding]; other site 444178001872 conserved gate region; other site 444178001873 putative PBP binding loops; other site 444178001874 ABC-ATPase subunit interface; other site 444178001875 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 444178001876 homotrimer interaction site [polypeptide binding]; other site 444178001877 putative active site [active] 444178001878 Uncharacterized conserved protein [Function unknown]; Region: COG5476 444178001879 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 444178001880 MlrC C-terminus; Region: MlrC_C; pfam07171 444178001881 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 444178001882 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 444178001883 Walker A/P-loop; other site 444178001884 ATP binding site [chemical binding]; other site 444178001885 Q-loop/lid; other site 444178001886 ABC transporter signature motif; other site 444178001887 Walker B; other site 444178001888 D-loop; other site 444178001889 H-loop/switch region; other site 444178001890 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 444178001891 ABC-ATPase subunit interface; other site 444178001892 dimer interface [polypeptide binding]; other site 444178001893 putative PBP binding regions; other site 444178001894 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 444178001895 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 444178001896 putative ligand binding residues [chemical binding]; other site 444178001897 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 444178001898 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178001899 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178001900 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 444178001901 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 444178001902 Helix-turn-helix domains; Region: HTH; cl00088 444178001903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 444178001904 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 444178001905 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 444178001906 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 444178001907 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 444178001908 generic binding surface II; other site 444178001909 generic binding surface I; other site 444178001910 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 444178001911 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 444178001912 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 444178001913 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 444178001914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001915 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 444178001916 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178001917 Hint domain; Region: Hint_2; pfam13403 444178001918 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 444178001919 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 444178001920 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 444178001921 putative DNA binding site [nucleotide binding]; other site 444178001922 putative Zn2+ binding site [ion binding]; other site 444178001923 AsnC family; Region: AsnC_trans_reg; pfam01037 444178001924 AzlC protein; Region: AzlC; cl00570 444178001925 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 444178001926 drug efflux system protein MdtG; Provisional; Region: PRK09874 444178001927 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 444178001928 putative substrate translocation pore; other site 444178001929 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 444178001930 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 444178001931 putative NAD(P) binding site [chemical binding]; other site 444178001932 active site 444178001933 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 444178001934 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 444178001935 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 444178001936 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 444178001937 putative active site [active] 444178001938 Dehydratase family; Region: ILVD_EDD; cl00340 444178001939 6-phosphogluconate dehydratase; Region: edd; TIGR01196 444178001940 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 444178001941 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 444178001942 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 444178001943 homodimer interface [polypeptide binding]; other site 444178001944 NADP binding site [chemical binding]; other site 444178001945 substrate binding site [chemical binding]; other site 444178001946 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 444178001947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001948 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 444178001949 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178001950 Walker A/P-loop; other site 444178001951 ATP binding site [chemical binding]; other site 444178001952 Q-loop/lid; other site 444178001953 ABC transporter signature motif; other site 444178001954 Walker B; other site 444178001955 D-loop; other site 444178001956 H-loop/switch region; other site 444178001957 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 444178001958 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 444178001959 conserved gate region; other site 444178001960 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 444178001961 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 444178001962 dimer interface [polypeptide binding]; other site 444178001963 conserved gate region; other site 444178001964 putative PBP binding loops; other site 444178001965 ABC-ATPase subunit interface; other site 444178001966 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 444178001967 active site clefts [active] 444178001968 zinc binding site [ion binding]; other site 444178001969 dimer interface [polypeptide binding]; other site 444178001970 tellurite resistance protein terB; Region: terB; cd07176 444178001971 putative metal binding site [ion binding]; other site 444178001972 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 444178001973 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444178001974 active site 444178001975 nucleotide binding site [chemical binding]; other site 444178001976 HIGH motif; other site 444178001977 KMSKS motif; other site 444178001978 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 444178001979 Predicted transcriptional regulator [Transcription]; Region: COG2932 444178001980 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 444178001981 Catalytic site [active] 444178001982 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 444178001983 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 444178001984 substrate binding site [chemical binding]; other site 444178001985 oxyanion hole (OAH) forming residues; other site 444178001986 trimer interface [polypeptide binding]; other site 444178001987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178001988 LDH/MDH dimer interface [polypeptide binding]; other site 444178001989 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 444178001990 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 444178001991 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 444178001992 dimer interface [polypeptide binding]; other site 444178001993 active site 444178001994 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 444178001995 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 444178001996 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 444178001997 FAD binding site [chemical binding]; other site 444178001998 substrate binding site [chemical binding]; other site 444178001999 catalytic residues [active] 444178002000 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 444178002001 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444178002002 Helix-turn-helix domains; Region: HTH; cl00088 444178002003 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 444178002004 putative dimerization interface [polypeptide binding]; other site 444178002005 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 444178002006 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 444178002007 active site 444178002008 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 444178002009 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178002010 Walker A/P-loop; other site 444178002011 ATP binding site [chemical binding]; other site 444178002012 Q-loop/lid; other site 444178002013 ABC transporter signature motif; other site 444178002014 Walker B; other site 444178002015 D-loop; other site 444178002016 H-loop/switch region; other site 444178002017 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 444178002018 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 444178002019 dimer interface [polypeptide binding]; other site 444178002020 conserved gate region; other site 444178002021 putative PBP binding loops; other site 444178002022 ABC-ATPase subunit interface; other site 444178002023 nickel transporter permease NikB; Provisional; Region: PRK10352 444178002024 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 444178002025 dimer interface [polypeptide binding]; other site 444178002026 conserved gate region; other site 444178002027 putative PBP binding loops; other site 444178002028 ABC-ATPase subunit interface; other site 444178002029 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 444178002030 substrate binding site [chemical binding]; other site 444178002031 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 444178002032 nickel responsive regulator; Provisional; Region: PRK02967 444178002033 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 444178002034 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 444178002035 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 444178002036 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 444178002037 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 444178002038 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 444178002039 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 444178002040 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 444178002041 putative PBP binding loops; other site 444178002042 ABC-ATPase subunit interface; other site 444178002043 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 444178002044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178002045 Walker A/P-loop; other site 444178002046 ATP binding site [chemical binding]; other site 444178002047 Q-loop/lid; other site 444178002048 ABC transporter signature motif; other site 444178002049 Walker B; other site 444178002050 D-loop; other site 444178002051 H-loop/switch region; other site 444178002052 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 444178002053 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178002054 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 444178002055 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 444178002056 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 444178002057 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444178002058 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178002059 DNA-binding site [nucleotide binding]; DNA binding site 444178002060 FCD domain; Region: FCD; cl11656 444178002061 mannonate dehydratase; Region: uxuA; TIGR00695 444178002062 mannonate dehydratase; Provisional; Region: PRK03906 444178002063 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 444178002064 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 444178002065 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178002066 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178002067 CrcB-like protein; Region: CRCB; cl09114 444178002068 CrcB-like protein; Region: CRCB; cl09114 444178002069 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 444178002070 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 444178002071 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 444178002072 DNA binding residues [nucleotide binding] 444178002073 putative dimer interface [polypeptide binding]; other site 444178002074 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 444178002075 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 444178002076 Sel1 repeat; Region: Sel1; cl02723 444178002077 Sel1 repeat; Region: Sel1; cl02723 444178002078 Sel1 repeat; Region: Sel1; cl02723 444178002079 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 444178002080 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 444178002081 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 444178002082 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 444178002083 putative active site [active] 444178002084 putative metal binding site [ion binding]; other site 444178002085 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 444178002086 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 444178002087 FMN binding site [chemical binding]; other site 444178002088 substrate binding site [chemical binding]; other site 444178002089 putative catalytic residue [active] 444178002090 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 444178002091 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 444178002092 HsdM N-terminal domain; Region: HsdM_N; pfam12161 444178002093 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; cl16911 444178002094 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 444178002095 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 444178002096 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 444178002097 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 444178002098 ATP binding site [chemical binding]; other site 444178002099 putative Mg++ binding site [ion binding]; other site 444178002100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178002101 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 444178002102 Protein of unknown function DUF45; Region: DUF45; cl00636 444178002103 Protein of unknown function DUF91; Region: DUF91; cl00709 444178002104 Uncharacterized conserved protein [Function unknown]; Region: COG3586 444178002105 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 444178002106 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 444178002107 inhibitor-cofactor binding pocket; inhibition site 444178002108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178002109 catalytic residue [active] 444178002110 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 444178002111 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 444178002112 FAD binding domain; Region: FAD_binding_4; pfam01565 444178002113 hypothetical protein; Validated; Region: PRK08238 444178002114 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178002115 UbiA prenyltransferase family; Region: UbiA; cl00337 444178002116 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 444178002117 Helix-turn-helix domains; Region: HTH; cl00088 444178002118 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 444178002119 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 444178002120 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 444178002121 Walker A/P-loop; other site 444178002122 ATP binding site [chemical binding]; other site 444178002123 Q-loop/lid; other site 444178002124 ABC transporter signature motif; other site 444178002125 Walker B; other site 444178002126 D-loop; other site 444178002127 H-loop/switch region; other site 444178002128 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 444178002129 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 444178002130 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 444178002131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002132 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 444178002133 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 444178002134 Helix-turn-helix domains; Region: HTH; cl00088 444178002135 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 444178002136 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 444178002137 substrate binding site [chemical binding]; other site 444178002138 dimer interface [polypeptide binding]; other site 444178002139 catalytic triad [active] 444178002140 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 444178002141 hypothetical protein; Provisional; Region: PRK08185 444178002142 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 444178002143 intersubunit interface [polypeptide binding]; other site 444178002144 active site 444178002145 zinc binding site [ion binding]; other site 444178002146 Na+ binding site [ion binding]; other site 444178002147 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 444178002148 AMP binding site [chemical binding]; other site 444178002149 metal binding site [ion binding]; metal-binding site 444178002150 active site 444178002151 Uncharacterized conserved protein [Function unknown]; Region: COG1739 444178002152 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 444178002153 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 444178002154 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 444178002155 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 444178002156 G1 box; other site 444178002157 putative GEF interaction site [polypeptide binding]; other site 444178002158 GTP/Mg2+ binding site [chemical binding]; other site 444178002159 Switch I region; other site 444178002160 G2 box; other site 444178002161 G3 box; other site 444178002162 Switch II region; other site 444178002163 G4 box; other site 444178002164 G5 box; other site 444178002165 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 444178002166 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 444178002167 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 444178002168 MgtE intracellular N domain; Region: MgtE_N; cl15244 444178002169 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 444178002170 Divalent cation transporter; Region: MgtE; cl00786 444178002171 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 444178002172 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 444178002173 active site 444178002174 Zn binding site [ion binding]; other site 444178002175 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 444178002176 dimer interface [polypeptide binding]; other site 444178002177 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178002178 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 444178002179 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; cl09155 444178002180 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 444178002181 substrate binding site [chemical binding]; other site 444178002182 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 444178002183 OsmC-like protein; Region: OsmC; cl00767 444178002184 Transcriptional regulators [Transcription]; Region: MarR; COG1846 444178002185 Helix-turn-helix domains; Region: HTH; cl00088 444178002186 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 444178002187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002188 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 444178002189 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 444178002190 putative substrate translocation pore; other site 444178002191 metabolite-proton symporter; Region: 2A0106; TIGR00883 444178002192 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 444178002193 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 444178002194 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 444178002195 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 444178002196 DNA binding site [nucleotide binding] 444178002197 active site 444178002198 tartrate dehydrogenase; Provisional; Region: PRK08194 444178002199 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 444178002200 Trm112p-like protein; Region: Trm112p; cl01066 444178002201 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 444178002202 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 444178002203 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 444178002204 catalytic residues [active] 444178002205 Uncharacterized conserved protein [Function unknown]; Region: COG3760 444178002206 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 444178002207 putative deacylase active site [active] 444178002208 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 444178002209 apolar tunnel; other site 444178002210 heme binding site [chemical binding]; other site 444178002211 dimerization interface [polypeptide binding]; other site 444178002212 ornithine cyclodeaminase; Validated; Region: PRK07589 444178002213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002214 Arginase family; Region: Arginase; cl00306 444178002215 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 444178002216 Helix-turn-helix domains; Region: HTH; cl00088 444178002217 AsnC family; Region: AsnC_trans_reg; pfam01037 444178002218 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 444178002219 FMN binding site [chemical binding]; other site 444178002220 active site 444178002221 substrate binding site [chemical binding]; other site 444178002222 catalytic residue [active] 444178002223 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 444178002224 dimerization interface [polypeptide binding]; other site 444178002225 putative DNA binding site [nucleotide binding]; other site 444178002226 putative Zn2+ binding site [ion binding]; other site 444178002227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002228 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 444178002229 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 444178002230 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 444178002231 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 444178002232 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178002233 tetrameric interface [polypeptide binding]; other site 444178002234 NAD binding site [chemical binding]; other site 444178002235 catalytic residues [active] 444178002236 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 444178002237 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 444178002238 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 444178002239 putative active site [active] 444178002240 putative substrate binding site [chemical binding]; other site 444178002241 putative cosubstrate binding site; other site 444178002242 catalytic site [active] 444178002243 hypothetical protein; Provisional; Region: PRK02947 444178002244 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 444178002245 putative active site [active] 444178002246 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 444178002247 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 444178002248 active site 444178002249 dimer interface [polypeptide binding]; other site 444178002250 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 444178002251 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 444178002252 dimer interface [polypeptide binding]; other site 444178002253 active site 444178002254 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 444178002255 dimer interface [polypeptide binding]; other site 444178002256 active site 444178002257 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 444178002258 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178002259 DNA-binding site [nucleotide binding]; DNA binding site 444178002260 UTRA domain; Region: UTRA; cl01230 444178002261 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 444178002262 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 444178002263 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178002264 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178002265 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178002266 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 444178002267 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; cl09108 444178002268 phosphate binding site [ion binding]; other site 444178002269 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178002270 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 444178002271 AsnC family; Region: AsnC_trans_reg; pfam01037 444178002272 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 444178002273 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 444178002274 active site 444178002275 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444178002276 dimer interface [polypeptide binding]; other site 444178002277 substrate binding site [chemical binding]; other site 444178002278 catalytic residues [active] 444178002279 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 444178002280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178002281 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 444178002282 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 444178002283 non-specific DNA binding site [nucleotide binding]; other site 444178002284 salt bridge; other site 444178002285 sequence-specific DNA binding site [nucleotide binding]; other site 444178002286 Cupin domain; Region: Cupin_2; cl09118 444178002287 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 444178002288 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 444178002289 inhibitor-cofactor binding pocket; inhibition site 444178002290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178002291 catalytic residue [active] 444178002292 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 444178002293 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178002294 DNA-binding site [nucleotide binding]; DNA binding site 444178002295 UTRA domain; Region: UTRA; cl01230 444178002296 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 444178002297 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 444178002298 active site 444178002299 imidazolonepropionase; Validated; Region: PRK09356 444178002300 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 444178002301 active site 444178002302 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 444178002303 active sites [active] 444178002304 tetramer interface [polypeptide binding]; other site 444178002305 N-formylglutamate amidohydrolase; Region: FGase; cl01522 444178002306 urocanate hydratase; Provisional; Region: PRK05414 444178002307 HutD; Region: HutD; cl01532 444178002308 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 444178002309 homodimer interface [polypeptide binding]; other site 444178002310 substrate-cofactor binding pocket; other site 444178002311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178002312 catalytic residue [active] 444178002313 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 444178002314 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 444178002315 TM-ABC transporter signature motif; other site 444178002316 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 444178002317 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 444178002318 Walker A/P-loop; other site 444178002319 ATP binding site [chemical binding]; other site 444178002320 Q-loop/lid; other site 444178002321 ABC transporter signature motif; other site 444178002322 Walker B; other site 444178002323 D-loop; other site 444178002324 H-loop/switch region; other site 444178002325 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 444178002326 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 444178002327 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 444178002328 putative ligand binding site [chemical binding]; other site 444178002329 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 444178002330 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 444178002331 active site 444178002332 intersubunit interface [polypeptide binding]; other site 444178002333 catalytic residue [active] 444178002334 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 444178002335 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 444178002336 Dehydratase family; Region: ILVD_EDD; cl00340 444178002337 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178002338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 444178002340 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 444178002341 Transcriptional regulators [Transcription]; Region: FadR; COG2186 444178002342 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178002343 DNA-binding site [nucleotide binding]; DNA binding site 444178002344 FCD domain; Region: FCD; cl11656 444178002345 D-aminopeptidase; Reviewed; Region: PRK13128 444178002346 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178002347 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 444178002348 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 444178002349 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 444178002350 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178002351 substrate binding pocket [chemical binding]; other site 444178002352 membrane-bound complex binding site; other site 444178002353 hinge residues; other site 444178002354 hypothetical protein; Provisional; Region: PRK06148 444178002355 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444178002356 active site 444178002357 substrate binding site [chemical binding]; other site 444178002358 ATP binding site [chemical binding]; other site 444178002359 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 444178002360 inhibitor-cofactor binding pocket; inhibition site 444178002361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178002362 catalytic residue [active] 444178002363 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 444178002364 Helix-turn-helix domains; Region: HTH; cl00088 444178002365 AsnC family; Region: AsnC_trans_reg; pfam01037 444178002366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444178002367 Helix-turn-helix domains; Region: HTH; cl00088 444178002368 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178002369 dimerization interface [polypeptide binding]; other site 444178002370 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 444178002371 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 444178002372 putative ligand binding site [chemical binding]; other site 444178002373 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 444178002374 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 444178002375 Walker A/P-loop; other site 444178002376 ATP binding site [chemical binding]; other site 444178002377 Q-loop/lid; other site 444178002378 ABC transporter signature motif; other site 444178002379 Walker B; other site 444178002380 D-loop; other site 444178002381 H-loop/switch region; other site 444178002382 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 444178002383 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 444178002384 Walker A/P-loop; other site 444178002385 ATP binding site [chemical binding]; other site 444178002386 Q-loop/lid; other site 444178002387 ABC transporter signature motif; other site 444178002388 Walker B; other site 444178002389 D-loop; other site 444178002390 H-loop/switch region; other site 444178002391 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 444178002392 TM-ABC transporter signature motif; other site 444178002393 choline dehydrogenase; Validated; Region: PRK02106 444178002394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002395 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 444178002396 NMT1-like family; Region: NMT1_2; cl15260 444178002397 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 444178002398 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 444178002399 Walker A/P-loop; other site 444178002400 ATP binding site [chemical binding]; other site 444178002401 Q-loop/lid; other site 444178002402 ABC transporter signature motif; other site 444178002403 Walker B; other site 444178002404 D-loop; other site 444178002405 H-loop/switch region; other site 444178002406 NIL domain; Region: NIL; cl09633 444178002407 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 444178002408 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 444178002409 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178002410 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 444178002411 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 444178002412 binding surface 444178002413 TPR motif; other site 444178002414 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 444178002415 binding surface 444178002416 TPR motif; other site 444178002417 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 444178002418 binding surface 444178002419 TPR motif; other site 444178002420 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 444178002421 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 444178002422 putative active site [active] 444178002423 putative catalytic site [active] 444178002424 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 444178002425 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 444178002426 motif II; other site 444178002427 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 444178002428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002429 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 444178002430 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 444178002431 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 444178002432 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 444178002433 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 444178002434 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 444178002435 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 444178002436 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 444178002437 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178002438 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 444178002439 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178002440 PAS fold; Region: PAS_7; pfam12860 444178002441 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444178002442 metal binding site [ion binding]; metal-binding site 444178002443 active site 444178002444 I-site; other site 444178002445 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 444178002446 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 444178002447 classical (c) SDRs; Region: SDR_c; cd05233 444178002448 NAD(P) binding site [chemical binding]; other site 444178002449 active site 444178002450 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178002451 Peptidase C26; Region: Peptidase_C26; pfam07722 444178002452 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 444178002453 catalytic triad [active] 444178002454 D-lactate dehydrogenase; Validated; Region: PRK08605 444178002455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002456 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178002457 Transcriptional regulators [Transcription]; Region: PurR; COG1609 444178002458 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444178002459 DNA binding site [nucleotide binding] 444178002460 domain linker motif; other site 444178002461 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 444178002462 putative dimerization interface [polypeptide binding]; other site 444178002463 putative ligand binding site [chemical binding]; other site 444178002464 Creatinine amidohydrolase; Region: Creatininase; cl00618 444178002465 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 444178002466 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 444178002467 P-loop, Walker A motif; other site 444178002468 Base recognition motif; other site 444178002469 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 444178002470 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 444178002471 structural tetrad; other site 444178002472 Predicted esterase [General function prediction only]; Region: COG0400 444178002473 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; cl12031 444178002474 TMAO/DMSO reductase; Reviewed; Region: PRK05363 444178002475 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 444178002476 Moco binding site; other site 444178002477 metal coordination site [ion binding]; other site 444178002478 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 444178002479 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 444178002480 homotrimer interaction site [polypeptide binding]; other site 444178002481 putative active site [active] 444178002482 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 444178002483 TM-ABC transporter signature motif; other site 444178002484 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 444178002485 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 444178002486 putative ligand binding site [chemical binding]; other site 444178002487 Transcriptional regulator [Transcription]; Region: IclR; COG1414 444178002488 Helix-turn-helix domains; Region: HTH; cl00088 444178002489 Bacterial transcriptional regulator; Region: IclR; pfam01614 444178002490 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 444178002491 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444178002492 N-terminal plug; other site 444178002493 ligand-binding site [chemical binding]; other site 444178002494 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 444178002495 dimer interface [polypeptide binding]; other site 444178002496 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178002497 metal binding site [ion binding]; metal-binding site 444178002498 glutathionine S-transferase; Provisional; Region: PRK10542 444178002499 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 444178002500 C-terminal domain interface [polypeptide binding]; other site 444178002501 GSH binding site (G-site) [chemical binding]; other site 444178002502 dimer interface [polypeptide binding]; other site 444178002503 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 444178002504 dimer interface [polypeptide binding]; other site 444178002505 N-terminal domain interface [polypeptide binding]; other site 444178002506 substrate binding pocket (H-site) [chemical binding]; other site 444178002507 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 444178002508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444178002509 metal binding site [ion binding]; metal-binding site 444178002510 active site 444178002511 I-site; other site 444178002512 hydroxyglutarate oxidase; Provisional; Region: PRK11728 444178002513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002514 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444178002515 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 444178002516 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 444178002517 active site 444178002518 catalytic site [active] 444178002519 substrate binding site [chemical binding]; other site 444178002520 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 444178002521 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178002522 Walker A/P-loop; other site 444178002523 ATP binding site [chemical binding]; other site 444178002524 Q-loop/lid; other site 444178002525 ABC transporter signature motif; other site 444178002526 Walker B; other site 444178002527 D-loop; other site 444178002528 H-loop/switch region; other site 444178002529 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178002530 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 444178002531 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178002532 Walker A/P-loop; other site 444178002533 ATP binding site [chemical binding]; other site 444178002534 Q-loop/lid; other site 444178002535 ABC transporter signature motif; other site 444178002536 Walker B; other site 444178002537 D-loop; other site 444178002538 H-loop/switch region; other site 444178002539 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178002540 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 444178002541 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 444178002542 dimer interface [polypeptide binding]; other site 444178002543 conserved gate region; other site 444178002544 putative PBP binding loops; other site 444178002545 ABC-ATPase subunit interface; other site 444178002546 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 444178002547 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 444178002548 dimer interface [polypeptide binding]; other site 444178002549 conserved gate region; other site 444178002550 putative PBP binding loops; other site 444178002551 ABC-ATPase subunit interface; other site 444178002552 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 444178002553 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 444178002554 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 444178002555 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 444178002556 putative NAD(P) binding site [chemical binding]; other site 444178002557 active site 444178002558 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178002559 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 444178002560 NAD(P) binding site [chemical binding]; other site 444178002561 catalytic residues [active] 444178002562 catalytic residues [active] 444178002563 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444178002564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178002565 DNA-binding site [nucleotide binding]; DNA binding site 444178002566 FCD domain; Region: FCD; cl11656 444178002567 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 444178002568 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444178002569 putative substrate translocation pore; other site 444178002570 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 444178002571 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 444178002572 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 444178002573 homotrimer interaction site [polypeptide binding]; other site 444178002574 putative active site [active] 444178002575 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 444178002576 Ribonuclease P; Region: Ribonuclease_P; cl00457 444178002577 membrane protein insertase; Provisional; Region: PRK01318 444178002578 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 444178002579 Predicted GTPase [General function prediction only]; Region: COG0218 444178002580 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 444178002581 G1 box; other site 444178002582 GTP/Mg2+ binding site [chemical binding]; other site 444178002583 Switch I region; other site 444178002584 G2 box; other site 444178002585 G3 box; other site 444178002586 Switch II region; other site 444178002587 G4 box; other site 444178002588 G5 box; other site 444178002589 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 444178002590 feedback inhibition sensing region; other site 444178002591 homohexameric interface [polypeptide binding]; other site 444178002592 nucleotide binding site [chemical binding]; other site 444178002593 N-acetyl-L-glutamate binding site [chemical binding]; other site 444178002594 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178002595 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 444178002596 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 444178002597 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 444178002598 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 444178002599 trimer interface [polypeptide binding]; other site 444178002600 active site 444178002601 substrate binding site [chemical binding]; other site 444178002602 CoA binding site [chemical binding]; other site 444178002603 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 444178002604 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 444178002605 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 444178002606 metal binding site [ion binding]; metal-binding site 444178002607 dimer interface [polypeptide binding]; other site 444178002608 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 444178002609 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 444178002610 dimerization interface 3.5A [polypeptide binding]; other site 444178002611 active site 444178002612 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 444178002613 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 444178002614 putative active site [active] 444178002615 substrate binding site [chemical binding]; other site 444178002616 putative cosubstrate binding site; other site 444178002617 catalytic site [active] 444178002618 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 444178002619 substrate binding site [chemical binding]; other site 444178002620 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 444178002621 active site 444178002622 catalytic residues [active] 444178002623 metal binding site [ion binding]; metal-binding site 444178002624 RmuC family; Region: RmuC; pfam02646 444178002625 Rdx family; Region: Rdx; cl01407 444178002626 GTP-binding protein LepA; Provisional; Region: PRK05433 444178002627 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 444178002628 G1 box; other site 444178002629 putative GEF interaction site [polypeptide binding]; other site 444178002630 GTP/Mg2+ binding site [chemical binding]; other site 444178002631 Switch I region; other site 444178002632 G2 box; other site 444178002633 G3 box; other site 444178002634 Switch II region; other site 444178002635 G4 box; other site 444178002636 G5 box; other site 444178002637 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 444178002638 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 444178002639 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 444178002640 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 444178002641 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 444178002642 putative NAD(P) binding site [chemical binding]; other site 444178002643 active site 444178002644 Bacitracin resistance protein BacA; Region: BacA; cl00858 444178002645 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 444178002646 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 444178002647 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 444178002648 N-terminal domain interface [polypeptide binding]; other site 444178002649 dimer interface [polypeptide binding]; other site 444178002650 substrate binding pocket (H-site) [chemical binding]; other site 444178002651 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 444178002652 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 444178002653 HEAT repeat; Region: HEAT; pfam02985 444178002654 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 444178002655 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 444178002656 putative NAD(P) binding site [chemical binding]; other site 444178002657 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 444178002658 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 444178002659 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 444178002660 active site 444178002661 dimer interfaces [polypeptide binding]; other site 444178002662 catalytic residues [active] 444178002663 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 444178002664 glucokinase, proteobacterial type; Region: glk; TIGR00749 444178002665 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 444178002666 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178002667 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 444178002668 Walker A/P-loop; other site 444178002669 ATP binding site [chemical binding]; other site 444178002670 Q-loop/lid; other site 444178002671 ABC transporter signature motif; other site 444178002672 Walker B; other site 444178002673 D-loop; other site 444178002674 H-loop/switch region; other site 444178002675 dihydrodipicolinate reductase; Provisional; Region: PRK00048 444178002676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002677 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 444178002678 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 444178002679 catalytic core [active] 444178002680 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 444178002681 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 444178002682 active site 444178002683 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 444178002684 putative FMN binding site [chemical binding]; other site 444178002685 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 444178002686 Ligand Binding Site [chemical binding]; other site 444178002687 YhhN-like protein; Region: YhhN; cl01505 444178002688 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 444178002689 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 444178002690 NAD(P) binding site [chemical binding]; other site 444178002691 catalytic residues [active] 444178002692 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 444178002693 putative catalytic site [active] 444178002694 putative metal binding site [ion binding]; other site 444178002695 putative phosphate binding site [ion binding]; other site 444178002696 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 444178002697 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 444178002698 putative active site [active] 444178002699 catalytic site [active] 444178002700 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 444178002701 putative active site [active] 444178002702 catalytic site [active] 444178002703 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 444178002704 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 444178002705 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 444178002706 G1 box; other site 444178002707 putative GEF interaction site [polypeptide binding]; other site 444178002708 GTP/Mg2+ binding site [chemical binding]; other site 444178002709 Switch I region; other site 444178002710 G2 box; other site 444178002711 G3 box; other site 444178002712 Switch II region; other site 444178002713 G4 box; other site 444178002714 G5 box; other site 444178002715 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 444178002716 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 444178002717 Flavoprotein; Region: Flavoprotein; cl08021 444178002718 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 444178002719 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 444178002720 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444178002721 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 444178002722 active site 444178002723 ATP binding site [chemical binding]; other site 444178002724 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 444178002725 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 444178002726 S-adenosylmethionine binding site [chemical binding]; other site 444178002727 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444178002728 active site 444178002729 SlyX; Region: SlyX; cl01090 444178002730 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 444178002731 putative transposase OrfB; Reviewed; Region: PHA02517 444178002732 HTH-like domain; Region: HTH_21; pfam13276 444178002733 Integrase core domain; Region: rve; cl01316 444178002734 Integrase core domain; Region: rve_3; cl15866 444178002735 Helix-turn-helix domains; Region: HTH; cl00088 444178002736 Helix-turn-helix domains; Region: HTH; cl00088 444178002737 putative transposase OrfB; Reviewed; Region: PHA02517 444178002738 HTH-like domain; Region: HTH_21; pfam13276 444178002739 Integrase core domain; Region: rve; cl01316 444178002740 Integrase core domain; Region: rve_3; cl15866 444178002741 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 444178002742 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 444178002743 Rrf2 family protein; Region: rrf2_super; TIGR00738 444178002744 Helix-turn-helix domains; Region: HTH; cl00088 444178002745 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 444178002746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178002747 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 444178002748 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 444178002749 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 444178002750 metal binding site [ion binding]; metal-binding site 444178002751 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 444178002752 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 444178002753 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 444178002754 ABC-ATPase subunit interface; other site 444178002755 dimer interface [polypeptide binding]; other site 444178002756 putative PBP binding regions; other site 444178002757 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 444178002758 metal binding site 2 [ion binding]; metal-binding site 444178002759 putative DNA binding helix; other site 444178002760 metal binding site 1 [ion binding]; metal-binding site 444178002761 dimer interface [polypeptide binding]; other site 444178002762 structural Zn2+ binding site [ion binding]; other site 444178002763 Rod binding protein; Region: Rod-binding; cl01626 444178002764 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 444178002765 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 444178002766 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 444178002767 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 444178002768 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 444178002769 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 444178002770 Flagellar protein FlbT; Region: FlbT; cl11455 444178002771 Flagellar protein FlaF; Region: FlaF; cl11454 444178002772 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 444178002773 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 444178002774 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 444178002775 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 444178002776 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 444178002777 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 444178002778 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 444178002779 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 444178002780 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 444178002781 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 444178002782 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 444178002783 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 444178002784 DNA binding site [nucleotide binding] 444178002785 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 444178002786 chemotaxis protein; Reviewed; Region: PRK12798 444178002787 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 444178002788 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 444178002789 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 444178002790 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 444178002791 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002792 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 444178002793 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002794 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 444178002795 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002796 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 444178002797 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002798 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 444178002799 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002800 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002801 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002802 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002803 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 444178002804 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 444178002805 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 444178002806 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 444178002807 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178002808 Uncharacterized conserved protein [Function unknown]; Region: COG3268 444178002809 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 444178002810 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 444178002811 TM-ABC transporter signature motif; other site 444178002812 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 444178002813 Helix-turn-helix domains; Region: HTH; cl00088 444178002814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444178002815 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 444178002816 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; cl09155 444178002817 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 444178002818 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178002819 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 444178002820 NAD binding site [chemical binding]; other site 444178002821 catalytic residues [active] 444178002822 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 444178002823 putative substrate binding pocket [chemical binding]; other site 444178002824 trimer interface [polypeptide binding]; other site 444178002825 Helix-turn-helix domains; Region: HTH; cl00088 444178002826 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 444178002827 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444178002828 Phosphotransferase enzyme family; Region: APH; pfam01636 444178002829 active site 444178002830 ATP binding site [chemical binding]; other site 444178002831 substrate binding site [chemical binding]; other site 444178002832 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178002833 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 444178002834 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178002835 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 444178002836 NAD(P) binding site [chemical binding]; other site 444178002837 catalytic residues [active] 444178002838 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 444178002839 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 444178002840 active site 444178002841 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 444178002842 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 444178002843 putative ligand binding site [chemical binding]; other site 444178002844 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 444178002845 TM-ABC transporter signature motif; other site 444178002846 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 444178002847 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 444178002848 Walker A/P-loop; other site 444178002849 ATP binding site [chemical binding]; other site 444178002850 Q-loop/lid; other site 444178002851 ABC transporter signature motif; other site 444178002852 Walker B; other site 444178002853 D-loop; other site 444178002854 H-loop/switch region; other site 444178002855 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 444178002856 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 444178002857 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 444178002858 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 444178002859 dimer interface [polypeptide binding]; other site 444178002860 conserved gate region; other site 444178002861 putative PBP binding loops; other site 444178002862 ABC-ATPase subunit interface; other site 444178002863 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 444178002864 dimer interface [polypeptide binding]; other site 444178002865 conserved gate region; other site 444178002866 putative PBP binding loops; other site 444178002867 ABC-ATPase subunit interface; other site 444178002868 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 444178002869 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178002870 Walker A/P-loop; other site 444178002871 ATP binding site [chemical binding]; other site 444178002872 Q-loop/lid; other site 444178002873 ABC transporter signature motif; other site 444178002874 Walker B; other site 444178002875 D-loop; other site 444178002876 H-loop/switch region; other site 444178002877 TOBE domain; Region: TOBE_2; cl01440 444178002878 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 444178002879 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444178002880 active site 444178002881 metal binding site [ion binding]; metal-binding site 444178002882 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 444178002883 Sulfatase; Region: Sulfatase; cl10460 444178002884 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 444178002885 NMT1-like family; Region: NMT1_2; cl15260 444178002886 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 444178002887 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 444178002888 Walker A/P-loop; other site 444178002889 ATP binding site [chemical binding]; other site 444178002890 Q-loop/lid; other site 444178002891 ABC transporter signature motif; other site 444178002892 Walker B; other site 444178002893 D-loop; other site 444178002894 H-loop/switch region; other site 444178002895 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 444178002896 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 444178002897 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 444178002898 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 444178002899 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444178002900 N-terminal plug; other site 444178002901 ligand-binding site [chemical binding]; other site 444178002902 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444178002903 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444178002904 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 444178002905 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 444178002906 putative ligand binding site [chemical binding]; other site 444178002907 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 444178002908 TM-ABC transporter signature motif; other site 444178002909 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 444178002910 TM-ABC transporter signature motif; other site 444178002911 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 444178002912 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 444178002913 Walker A/P-loop; other site 444178002914 ATP binding site [chemical binding]; other site 444178002915 Q-loop/lid; other site 444178002916 ABC transporter signature motif; other site 444178002917 Walker B; other site 444178002918 D-loop; other site 444178002919 H-loop/switch region; other site 444178002920 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 444178002921 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 444178002922 Walker A/P-loop; other site 444178002923 ATP binding site [chemical binding]; other site 444178002924 Q-loop/lid; other site 444178002925 ABC transporter signature motif; other site 444178002926 Walker B; other site 444178002927 D-loop; other site 444178002928 H-loop/switch region; other site 444178002929 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 444178002930 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 444178002931 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178002932 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 444178002933 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 444178002934 FeS/SAM binding site; other site 444178002935 HemN C-terminal domain; Region: HemN_C; pfam06969 444178002936 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 444178002937 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 444178002938 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 444178002939 P-loop; other site 444178002940 Magnesium ion binding site [ion binding]; other site 444178002941 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 444178002942 P-loop; other site 444178002943 Magnesium ion binding site [ion binding]; other site 444178002944 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 444178002945 ParB-like nuclease domain; Region: ParBc; cl02129 444178002946 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 444178002947 DnaA N-terminal domain; Region: DnaA_N; pfam11638 444178002948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178002949 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 444178002950 DnaA box-binding interface [nucleotide binding]; other site 444178002951 DNA polymerase III subunit beta; Validated; Region: PRK05643 444178002952 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 444178002953 putative DNA binding surface [nucleotide binding]; other site 444178002954 dimer interface [polypeptide binding]; other site 444178002955 beta-clamp/clamp loader binding surface; other site 444178002956 beta-clamp/translesion DNA polymerase binding surface; other site 444178002957 recombination protein F; Reviewed; Region: recF; PRK00064 444178002958 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 444178002959 Walker A/P-loop; other site 444178002960 ATP binding site [chemical binding]; other site 444178002961 Q-loop/lid; other site 444178002962 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178002963 ABC transporter signature motif; other site 444178002964 Walker B; other site 444178002965 D-loop; other site 444178002966 H-loop/switch region; other site 444178002967 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 444178002968 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 444178002969 ATP binding site [chemical binding]; other site 444178002970 substrate interface [chemical binding]; other site 444178002971 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 444178002972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178002973 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 444178002974 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178002975 Walker A/P-loop; other site 444178002976 ATP binding site [chemical binding]; other site 444178002977 Q-loop/lid; other site 444178002978 ABC transporter signature motif; other site 444178002979 Walker B; other site 444178002980 D-loop; other site 444178002981 H-loop/switch region; other site 444178002982 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178002983 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178002984 Walker A/P-loop; other site 444178002985 ATP binding site [chemical binding]; other site 444178002986 Q-loop/lid; other site 444178002987 ABC transporter signature motif; other site 444178002988 Walker B; other site 444178002989 D-loop; other site 444178002990 H-loop/switch region; other site 444178002991 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178002992 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 444178002993 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 444178002994 dimer interface [polypeptide binding]; other site 444178002995 conserved gate region; other site 444178002996 putative PBP binding loops; other site 444178002997 ABC-ATPase subunit interface; other site 444178002998 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 444178002999 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 444178003000 dimer interface [polypeptide binding]; other site 444178003001 conserved gate region; other site 444178003002 putative PBP binding loops; other site 444178003003 ABC-ATPase subunit interface; other site 444178003004 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 444178003005 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 444178003006 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 444178003007 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 444178003008 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 444178003009 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 444178003010 dimerization interface [polypeptide binding]; other site 444178003011 ligand binding site [chemical binding]; other site 444178003012 enoyl-CoA hydratase; Provisional; Region: PRK07468 444178003013 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 444178003014 substrate binding site [chemical binding]; other site 444178003015 oxyanion hole (OAH) forming residues; other site 444178003016 trimer interface [polypeptide binding]; other site 444178003017 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 444178003018 active site 444178003019 catalytic residues [active] 444178003020 metal binding site [ion binding]; metal-binding site 444178003021 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 444178003022 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444178003023 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 444178003024 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 444178003025 carboxyltransferase (CT) interaction site; other site 444178003026 biotinylation site [posttranslational modification]; other site 444178003027 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 444178003028 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 444178003029 isovaleryl-CoA dehydrogenase; Region: PLN02519 444178003030 substrate binding site [chemical binding]; other site 444178003031 FAD binding site [chemical binding]; other site 444178003032 catalytic base [active] 444178003033 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 444178003034 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 444178003035 AMP-binding enzyme; Region: AMP-binding; cl15778 444178003036 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444178003037 CHRD domain; Region: CHRD; cl06473 444178003038 OpgC protein; Region: OpgC_C; cl00792 444178003039 Acyltransferase family; Region: Acyl_transf_3; pfam01757 444178003040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 444178003041 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 444178003042 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 444178003043 hinge; other site 444178003044 active site 444178003045 cytidylate kinase; Provisional; Region: cmk; PRK00023 444178003046 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 444178003047 CMP-binding site; other site 444178003048 The sites determining sugar specificity; other site 444178003049 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 444178003050 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 444178003051 RNA binding site [nucleotide binding]; other site 444178003052 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 444178003053 RNA binding site [nucleotide binding]; other site 444178003054 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 444178003055 RNA binding site [nucleotide binding]; other site 444178003056 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 444178003057 RNA binding site [nucleotide binding]; other site 444178003058 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 444178003059 RNA binding site [nucleotide binding]; other site 444178003060 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 444178003061 RNA binding site [nucleotide binding]; other site 444178003062 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178003063 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 444178003064 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 444178003065 Helix-turn-helix domains; Region: HTH; cl00088 444178003066 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 444178003067 putative dimerization interface [polypeptide binding]; other site 444178003068 lytic murein transglycosylase; Region: MltB_2; TIGR02283 444178003069 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 444178003070 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444178003071 recombination protein RecR; Reviewed; Region: recR; PRK00076 444178003072 RecR protein; Region: RecR; pfam02132 444178003073 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 444178003074 putative active site [active] 444178003075 putative metal-binding site [ion binding]; other site 444178003076 tetramer interface [polypeptide binding]; other site 444178003077 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 444178003078 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 444178003079 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 444178003080 Walker A motif; other site 444178003081 ATP binding site [chemical binding]; other site 444178003082 Walker B motif; other site 444178003083 arginine finger; other site 444178003084 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 444178003085 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 444178003086 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 444178003087 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 444178003088 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 444178003089 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 444178003090 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 444178003091 putative NADH binding site [chemical binding]; other site 444178003092 putative active site [active] 444178003093 nudix motif; other site 444178003094 putative metal binding site [ion binding]; other site 444178003095 prephenate dehydratase; Provisional; Region: PRK11899 444178003096 Prephenate dehydratase; Region: PDT; pfam00800 444178003097 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 444178003098 putative L-Phe binding site [chemical binding]; other site 444178003099 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 444178003100 Ligand binding site; other site 444178003101 oligomer interface; other site 444178003102 Cytochrome c; Region: Cytochrom_C; cl11414 444178003103 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 444178003104 putative MPT binding site; other site 444178003105 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 444178003106 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 444178003107 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 444178003108 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 444178003109 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 444178003110 D-pathway; other site 444178003111 Putative ubiquinol binding site [chemical binding]; other site 444178003112 Low-spin heme (heme b) binding site [chemical binding]; other site 444178003113 Putative water exit pathway; other site 444178003114 Binuclear center (heme o3/CuB) [ion binding]; other site 444178003115 K-pathway; other site 444178003116 Putative proton exit pathway; other site 444178003117 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 444178003118 Subunit I/III interface [polypeptide binding]; other site 444178003119 Subunit III/IV interface [polypeptide binding]; other site 444178003120 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 444178003121 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 444178003122 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 444178003123 Surface antigen; Region: Bac_surface_Ag; cl03097 444178003124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 444178003125 Family of unknown function (DUF490); Region: DUF490; pfam04357 444178003126 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178003127 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 444178003128 Protein of unknown function (DUF461); Region: DUF461; cl01071 444178003129 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 444178003130 dimer interface [polypeptide binding]; other site 444178003131 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178003132 active site 444178003133 metal binding site [ion binding]; metal-binding site 444178003134 glutathione binding site [chemical binding]; other site 444178003135 Domain of unknown function DUF59; Region: DUF59; cl00941 444178003136 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 444178003137 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 444178003138 Walker A motif; other site 444178003139 phosphoglucomutase; Region: PLN02307 444178003140 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 444178003141 substrate binding site [chemical binding]; other site 444178003142 dimer interface [polypeptide binding]; other site 444178003143 active site 444178003144 metal binding site [ion binding]; metal-binding site 444178003145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444178003146 Helix-turn-helix domains; Region: HTH; cl00088 444178003147 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 444178003148 putative effector binding pocket; other site 444178003149 putative dimerization interface [polypeptide binding]; other site 444178003150 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 444178003151 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; cl12031 444178003152 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 444178003153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178003154 active site 444178003155 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 444178003156 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 444178003157 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444178003158 catalytic residue [active] 444178003159 Haemolysin-III related; Region: HlyIII; cl03831 444178003160 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 444178003161 Haemagglutinin; Region: HIM; pfam05662 444178003162 Haemagglutinin; Region: HIM; pfam05662 444178003163 Hep_Hag; Region: Hep_Hag; pfam05658 444178003164 Haemagglutinin; Region: HIM; pfam05662 444178003165 Haemagglutinin; Region: HIM; pfam05662 444178003166 YadA-like C-terminal region; Region: YadA; pfam03895 444178003167 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 444178003168 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 444178003169 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 444178003170 ANP binding site [chemical binding]; other site 444178003171 Substrate Binding Site II [chemical binding]; other site 444178003172 Substrate Binding Site I [chemical binding]; other site 444178003173 LysE type translocator; Region: LysE; cl00565 444178003174 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 444178003175 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 444178003176 FeS/SAM binding site; other site 444178003177 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 444178003178 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 444178003179 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 444178003180 aromatic arch; other site 444178003181 DCoH dimer interaction site [polypeptide binding]; other site 444178003182 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 444178003183 DCoH tetramer interaction site [polypeptide binding]; other site 444178003184 substrate binding site [chemical binding]; other site 444178003185 Low molecular weight phosphatase family; Region: LMWPc; cd00115 444178003186 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 444178003187 active site 444178003188 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 444178003189 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 444178003190 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 444178003191 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 444178003192 active site 444178003193 catalytic triad [active] 444178003194 oxyanion hole [active] 444178003195 switch loop; other site 444178003196 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 444178003197 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 444178003198 Walker A/P-loop; other site 444178003199 ATP binding site [chemical binding]; other site 444178003200 Q-loop/lid; other site 444178003201 ABC transporter signature motif; other site 444178003202 Walker B; other site 444178003203 D-loop; other site 444178003204 H-loop/switch region; other site 444178003205 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 444178003206 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 444178003207 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 444178003208 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444178003209 Coenzyme A binding pocket [chemical binding]; other site 444178003210 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 444178003211 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 444178003212 aconitate hydratase; Validated; Region: PRK09277 444178003213 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 444178003214 substrate binding site [chemical binding]; other site 444178003215 ligand binding site [chemical binding]; other site 444178003216 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 444178003217 substrate binding site [chemical binding]; other site 444178003218 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 444178003219 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE...; Region: ABC_CcmA_heme_exporter; cd03231 444178003220 Walker A/P-loop; other site 444178003221 ATP binding site [chemical binding]; other site 444178003222 Q-loop/lid; other site 444178003223 ABC transporter signature motif; other site 444178003224 Walker B; other site 444178003225 D-loop; other site 444178003226 H-loop/switch region; other site 444178003227 CcmB protein; Region: CcmB; cl01016 444178003228 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 444178003229 Heme exporter protein D (CcmD); Region: CcmD; cl11475 444178003230 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 444178003231 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 444178003232 catalytic residues [active] 444178003233 central insert; other site 444178003234 Dehydratase family; Region: ILVD_EDD; cl00340 444178003235 response regulator; Provisional; Region: PRK13435 444178003236 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; cl09944 444178003237 AsnC family; Region: AsnC_trans_reg; pfam01037 444178003238 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 444178003239 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 444178003240 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 444178003241 putative active site [active] 444178003242 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178003243 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178003244 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 444178003245 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 444178003246 dimer interface [polypeptide binding]; other site 444178003247 conserved gate region; other site 444178003248 putative PBP binding loops; other site 444178003249 ABC-ATPase subunit interface; other site 444178003250 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 444178003251 dimer interface [polypeptide binding]; other site 444178003252 conserved gate region; other site 444178003253 putative PBP binding loops; other site 444178003254 ABC-ATPase subunit interface; other site 444178003255 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 444178003256 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 444178003257 Walker A/P-loop; other site 444178003258 ATP binding site [chemical binding]; other site 444178003259 Q-loop/lid; other site 444178003260 ABC transporter signature motif; other site 444178003261 Walker B; other site 444178003262 D-loop; other site 444178003263 H-loop/switch region; other site 444178003264 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 444178003265 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 444178003266 Putative glucoamylase; Region: Glycoamylase; pfam10091 444178003267 Putative carbohydrate binding domain; Region: CBM_X; cl05621 444178003268 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 444178003269 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 444178003270 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 444178003271 Putative carbohydrate binding domain; Region: CBM_X; cl05621 444178003272 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 444178003273 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 444178003274 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 444178003275 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 444178003276 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; cl09108 444178003277 active site 444178003278 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 444178003279 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 444178003280 S-adenosylmethionine binding site [chemical binding]; other site 444178003281 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444178003282 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 444178003283 putative substrate binding site [chemical binding]; other site 444178003284 putative ATP binding site [chemical binding]; other site 444178003285 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 444178003286 classical (c) SDRs; Region: SDR_c; cd05233 444178003287 NAD(P) binding site [chemical binding]; other site 444178003288 active site 444178003289 Transglycosylase; Region: Transgly; cl07896 444178003290 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 444178003291 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178003292 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178003293 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178003294 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 444178003295 catalytic site [active] 444178003296 putative active site [active] 444178003297 putative substrate binding site [chemical binding]; other site 444178003298 hypothetical protein; Validated; Region: PRK09104 444178003299 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 444178003300 metal binding site [ion binding]; metal-binding site 444178003301 putative dimer interface [polypeptide binding]; other site 444178003302 DNA polymerase I; Region: pola; TIGR00593 444178003303 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 444178003304 active site 444178003305 metal binding site 1 [ion binding]; metal-binding site 444178003306 putative 5' ssDNA interaction site; other site 444178003307 metal binding site 3; metal-binding site 444178003308 metal binding site 2 [ion binding]; metal-binding site 444178003309 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 444178003310 putative DNA binding site [nucleotide binding]; other site 444178003311 putative metal binding site [ion binding]; other site 444178003312 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 444178003313 active site 444178003314 catalytic site [active] 444178003315 substrate binding site [chemical binding]; other site 444178003316 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 444178003317 active site 444178003318 DNA binding site [nucleotide binding] 444178003319 catalytic site [active] 444178003320 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 444178003321 DEAD-like helicases superfamily; Region: DEXDc; smart00487 444178003322 ATP binding site [chemical binding]; other site 444178003323 Mg++ binding site [ion binding]; other site 444178003324 motif III; other site 444178003325 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 444178003326 nucleotide binding region [chemical binding]; other site 444178003327 ATP-binding site [chemical binding]; other site 444178003328 ATP-dependent helicase HepA; Validated; Region: PRK04914 444178003329 DbpA RNA binding domain; Region: DbpA; pfam03880 444178003330 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 444178003331 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 444178003332 Mg2+ binding site [ion binding]; other site 444178003333 G-X-G motif; other site 444178003334 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 444178003335 anchoring element; other site 444178003336 dimer interface [polypeptide binding]; other site 444178003337 ATP binding site [chemical binding]; other site 444178003338 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 444178003339 active site 444178003340 putative metal-binding site [ion binding]; other site 444178003341 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 444178003342 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; cl12031 444178003343 Putative esterase; Region: Esterase; pfam00756 444178003344 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 444178003345 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 444178003346 putative metal binding site [ion binding]; other site 444178003347 putative homodimer interface [polypeptide binding]; other site 444178003348 putative homotetramer interface [polypeptide binding]; other site 444178003349 putative homodimer-homodimer interface [polypeptide binding]; other site 444178003350 putative allosteric switch controlling residues; other site 444178003351 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 444178003352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178003353 ATP binding site [chemical binding]; other site 444178003354 putative Mg++ binding site [ion binding]; other site 444178003355 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 444178003356 nucleotide binding region [chemical binding]; other site 444178003357 ATP-binding site [chemical binding]; other site 444178003358 Helicase associated domain (HA2); Region: HA2; cl04503 444178003359 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 444178003360 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 444178003361 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 444178003362 ATP binding site [chemical binding]; other site 444178003363 Mg2+ binding site [ion binding]; other site 444178003364 G-X-G motif; other site 444178003365 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178003366 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 444178003367 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 444178003368 active site 444178003369 phosphorylation site [posttranslational modification] 444178003370 intermolecular recognition site; other site 444178003371 dimerization interface [polypeptide binding]; other site 444178003372 Helix-turn-helix domains; Region: HTH; cl00088 444178003373 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 444178003374 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178003375 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 444178003376 NifU-like domain; Region: NifU; cl00484 444178003377 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 444178003378 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 444178003379 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 444178003380 active site 444178003381 HIGH motif; other site 444178003382 dimer interface [polypeptide binding]; other site 444178003383 KMSKS motif; other site 444178003384 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 444178003385 PII uridylyl-transferase; Provisional; Region: PRK05092 444178003386 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 444178003387 metal binding triad; other site 444178003388 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 444178003389 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 444178003390 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 444178003391 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 444178003392 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 444178003393 MutS domain I; Region: MutS_I; pfam01624 444178003394 MutS domain II; Region: MutS_II; pfam05188 444178003395 MutS family domain IV; Region: MutS_IV; pfam05190 444178003396 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 444178003397 Walker A/P-loop; other site 444178003398 ATP binding site [chemical binding]; other site 444178003399 Q-loop/lid; other site 444178003400 ABC transporter signature motif; other site 444178003401 Walker B; other site 444178003402 D-loop; other site 444178003403 H-loop/switch region; other site 444178003404 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178003405 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 444178003406 lipoprotein signal peptidase; Provisional; Region: PRK14787 444178003407 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 444178003408 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 444178003409 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 444178003410 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 444178003411 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 444178003412 S-adenosylmethionine binding site [chemical binding]; other site 444178003413 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 444178003414 IHF dimer interface [polypeptide binding]; other site 444178003415 IHF - DNA interface [nucleotide binding]; other site 444178003416 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 444178003417 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 444178003418 tandem repeat interface [polypeptide binding]; other site 444178003419 oligomer interface [polypeptide binding]; other site 444178003420 active site residues [active] 444178003421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 444178003422 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 444178003423 OstA-like protein; Region: OstA; cl00844 444178003424 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 444178003425 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 444178003426 Walker A/P-loop; other site 444178003427 ATP binding site [chemical binding]; other site 444178003428 Q-loop/lid; other site 444178003429 ABC transporter signature motif; other site 444178003430 Walker B; other site 444178003431 D-loop; other site 444178003432 H-loop/switch region; other site 444178003433 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 444178003434 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 444178003435 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 444178003436 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 444178003437 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 A site; Region: RaiA; cd00552 444178003438 30S subunit binding site; other site 444178003439 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 444178003440 active site 444178003441 phosphorylation site [posttranslational modification] 444178003442 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 444178003443 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 444178003444 putative dimer interface [polypeptide binding]; other site 444178003445 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 444178003446 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 444178003447 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 444178003448 minor groove reading motif; other site 444178003449 helix-hairpin-helix signature motif; other site 444178003450 substrate binding pocket [chemical binding]; other site 444178003451 active site 444178003452 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 444178003453 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 444178003454 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 444178003455 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444178003456 substrate binding site [chemical binding]; other site 444178003457 ATP binding site [chemical binding]; other site 444178003458 Predicted membrane protein [Function unknown]; Region: COG2860 444178003459 UPF0126 domain; Region: UPF0126; pfam03458 444178003460 UPF0126 domain; Region: UPF0126; pfam03458 444178003461 heat shock protein GrpE; Provisional; Region: PRK14141 444178003462 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 444178003463 dimer interface [polypeptide binding]; other site 444178003464 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 444178003465 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 444178003466 ribonuclease PH; Reviewed; Region: rph; PRK00173 444178003467 Ribonuclease PH; Region: RNase_PH_bact; cd11362 444178003468 hexamer interface [polypeptide binding]; other site 444178003469 active site 444178003470 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178003471 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 444178003472 putative metal binding site [ion binding]; other site 444178003473 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 444178003474 active site 444178003475 dimerization interface [polypeptide binding]; other site 444178003476 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 444178003477 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 444178003478 FeS/SAM binding site; other site 444178003479 HemN C-terminal domain; Region: HemN_C; pfam06969 444178003480 Predicted methyltransferases [General function prediction only]; Region: COG0313 444178003481 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 444178003482 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 444178003483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178003484 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 444178003485 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 444178003486 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 444178003487 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 444178003488 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 444178003489 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 444178003490 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 444178003491 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 444178003492 Active Sites [active] 444178003493 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 444178003494 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 444178003495 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 444178003496 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 444178003497 active site 444178003498 DNA binding site [nucleotide binding] 444178003499 BA14K-like protein; Region: BA14K; pfam07886 444178003500 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 444178003501 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 444178003502 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 444178003503 substrate binding pocket [chemical binding]; other site 444178003504 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 444178003505 B12 binding site [chemical binding]; other site 444178003506 cobalt ligand [ion binding]; other site 444178003507 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 444178003508 Autoinducer binding domain; Region: Autoind_bind; pfam03472 444178003509 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 444178003510 DNA binding residues [nucleotide binding] 444178003511 aminotransferase; Provisional; Region: PRK06105 444178003512 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 444178003513 inhibitor-cofactor binding pocket; inhibition site 444178003514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178003515 catalytic residue [active] 444178003516 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 444178003517 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 444178003518 Active Sites [active] 444178003519 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 444178003520 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 444178003521 CysD dimerization site [polypeptide binding]; other site 444178003522 G1 box; other site 444178003523 putative GEF interaction site [polypeptide binding]; other site 444178003524 GTP/Mg2+ binding site [chemical binding]; other site 444178003525 Switch I region; other site 444178003526 G2 box; other site 444178003527 G3 box; other site 444178003528 Switch II region; other site 444178003529 G4 box; other site 444178003530 G5 box; other site 444178003531 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 444178003532 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 444178003533 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 444178003534 ligand-binding site [chemical binding]; other site 444178003535 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 444178003536 active site 444178003537 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 444178003538 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 444178003539 ligand binding site [chemical binding]; other site 444178003540 flexible hinge region; other site 444178003541 Helix-turn-helix domains; Region: HTH; cl00088 444178003542 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 444178003543 Helix-turn-helix domains; Region: HTH; cl00088 444178003544 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 444178003545 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 444178003546 GAF domain; Region: GAF; cl15785 444178003547 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 444178003548 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178003549 NAD(P) binding site [chemical binding]; other site 444178003550 catalytic residues [active] 444178003551 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 444178003552 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 444178003553 NAD binding site [chemical binding]; other site 444178003554 substrate binding site [chemical binding]; other site 444178003555 catalytic Zn binding site [ion binding]; other site 444178003556 tetramer interface [polypeptide binding]; other site 444178003557 structural Zn binding site [ion binding]; other site 444178003558 Protein of unknown function (DUF779); Region: DUF779; cl01432 444178003559 Transcriptional regulators [Transcription]; Region: PurR; COG1609 444178003560 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444178003561 DNA binding site [nucleotide binding] 444178003562 domain linker motif; other site 444178003563 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 444178003564 putative dimerization interface [polypeptide binding]; other site 444178003565 putative ligand binding site [chemical binding]; other site 444178003566 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178003567 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 444178003568 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 444178003569 Walker A/P-loop; other site 444178003570 ATP binding site [chemical binding]; other site 444178003571 Q-loop/lid; other site 444178003572 ABC transporter signature motif; other site 444178003573 Walker B; other site 444178003574 D-loop; other site 444178003575 H-loop/switch region; other site 444178003576 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 444178003577 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178003578 NAD(P) binding site [chemical binding]; other site 444178003579 catalytic residues [active] 444178003580 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 444178003581 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 444178003582 dimer interface [polypeptide binding]; other site 444178003583 conserved gate region; other site 444178003584 putative PBP binding loops; other site 444178003585 ABC-ATPase subunit interface; other site 444178003586 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 444178003587 NMT1/THI5 like; Region: NMT1; pfam09084 444178003588 NMT1-like family; Region: NMT1_2; cl15260 444178003589 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 444178003590 active site 444178003591 thiamine phosphate binding site [chemical binding]; other site 444178003592 pyrophosphate binding site [ion binding]; other site 444178003593 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 444178003594 ThiS interaction site; other site 444178003595 putative active site [active] 444178003596 tetramer interface [polypeptide binding]; other site 444178003597 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 444178003598 thiS-thiF/thiG interaction site; other site 444178003599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178003600 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 444178003601 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 444178003602 dimer interface [polypeptide binding]; other site 444178003603 substrate binding site [chemical binding]; other site 444178003604 ATP binding site [chemical binding]; other site 444178003605 PAS domain S-box; Region: sensory_box; TIGR00229 444178003606 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 444178003607 PAS domain S-box; Region: sensory_box; TIGR00229 444178003608 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 444178003609 putative active site [active] 444178003610 heme pocket [chemical binding]; other site 444178003611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444178003612 metal binding site [ion binding]; metal-binding site 444178003613 active site 444178003614 I-site; other site 444178003615 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 444178003616 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 444178003617 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 444178003618 metal-binding site [ion binding] 444178003619 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 444178003620 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178003621 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 444178003622 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 444178003623 DNA binding residues [nucleotide binding] 444178003624 dimer interface [polypeptide binding]; other site 444178003625 copper binding site [ion binding]; other site 444178003626 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 444178003627 dimer interface [polypeptide binding]; other site 444178003628 conserved gate region; other site 444178003629 putative PBP binding loops; other site 444178003630 ABC-ATPase subunit interface; other site 444178003631 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 444178003632 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 444178003633 Walker A/P-loop; other site 444178003634 ATP binding site [chemical binding]; other site 444178003635 Q-loop/lid; other site 444178003636 ABC transporter signature motif; other site 444178003637 Walker B; other site 444178003638 D-loop; other site 444178003639 H-loop/switch region; other site 444178003640 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 444178003641 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 444178003642 NMT1-like family; Region: NMT1_2; cl15260 444178003643 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 444178003644 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 444178003645 heme-binding site [chemical binding]; other site 444178003646 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 444178003647 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 444178003648 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 444178003649 NAD(P) binding site [chemical binding]; other site 444178003650 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 444178003651 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178003652 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 444178003653 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 444178003654 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 444178003655 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; cl00159 444178003656 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 444178003657 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 444178003658 Transcriptional regulator [Transcription]; Region: IclR; COG1414 444178003659 Helix-turn-helix domains; Region: HTH; cl00088 444178003660 Bacterial transcriptional regulator; Region: IclR; pfam01614 444178003661 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 444178003662 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178003663 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 444178003664 dimer interface [polypeptide binding]; other site 444178003665 conserved gate region; other site 444178003666 putative PBP binding loops; other site 444178003667 ABC-ATPase subunit interface; other site 444178003668 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 444178003669 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 444178003670 dimer interface [polypeptide binding]; other site 444178003671 conserved gate region; other site 444178003672 putative PBP binding loops; other site 444178003673 ABC-ATPase subunit interface; other site 444178003674 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 444178003675 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 444178003676 Walker A/P-loop; other site 444178003677 ATP binding site [chemical binding]; other site 444178003678 Q-loop/lid; other site 444178003679 ABC transporter signature motif; other site 444178003680 Walker B; other site 444178003681 D-loop; other site 444178003682 H-loop/switch region; other site 444178003683 TOBE domain; Region: TOBE_2; cl01440 444178003684 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 444178003685 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 444178003686 active site pocket [active] 444178003687 Domain of unknown function (DUF718); Region: DUF718; cl01281 444178003688 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178003689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178003690 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 444178003691 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 444178003692 NAD binding site [chemical binding]; other site 444178003693 homotetramer interface [polypeptide binding]; other site 444178003694 homodimer interface [polypeptide binding]; other site 444178003695 active site 444178003696 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 444178003697 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 444178003698 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 444178003699 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 444178003700 putative active site pocket [active] 444178003701 metal binding site [ion binding]; metal-binding site 444178003702 integrase; Provisional; Region: PRK09692 444178003703 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444178003704 active site 444178003705 Int/Topo IB signature motif; other site 444178003706 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 444178003707 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 444178003708 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 444178003709 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 444178003710 Helix-turn-helix domains; Region: HTH; cl00088 444178003711 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 444178003712 Domain of unknown function (DUF955); Region: DUF955; cl01076 444178003713 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 444178003714 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 444178003715 non-specific DNA binding site [nucleotide binding]; other site 444178003716 salt bridge; other site 444178003717 sequence-specific DNA binding site [nucleotide binding]; other site 444178003718 TIR domain; Region: TIR_2; cl15770 444178003719 Domain of unknown function (DUF329); Region: DUF329; cl01144 444178003720 Maf-like protein; Region: Maf; pfam02545 444178003721 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 444178003722 active site 444178003723 dimer interface [polypeptide binding]; other site 444178003724 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 444178003725 rRNA binding site [nucleotide binding]; other site 444178003726 predicted 30S ribosome binding site; other site 444178003727 Low molecular weight phosphatase family; Region: LMWPc; cd00115 444178003728 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 444178003729 active site 444178003730 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 444178003731 histidinol dehydrogenase; Region: hisD; TIGR00069 444178003732 NAD binding site [chemical binding]; other site 444178003733 dimerization interface [polypeptide binding]; other site 444178003734 product binding site; other site 444178003735 substrate binding site [chemical binding]; other site 444178003736 zinc binding site [ion binding]; other site 444178003737 catalytic residues [active] 444178003738 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 444178003739 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 444178003740 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 444178003741 hinge; other site 444178003742 active site 444178003743 BRO family, N-terminal domain; Region: Bro-N; cl10591 444178003744 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 444178003745 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 444178003746 catalytic residues [active] 444178003747 catalytic nucleophile [active] 444178003748 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 444178003749 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 444178003750 DNA-binding interface [nucleotide binding]; DNA binding site 444178003751 UreD urease accessory protein; Region: UreD; cl00530 444178003752 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 444178003753 alpha-gamma subunit interface [polypeptide binding]; other site 444178003754 beta-gamma subunit interface [polypeptide binding]; other site 444178003755 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 444178003756 gamma-beta subunit interface [polypeptide binding]; other site 444178003757 alpha-beta subunit interface [polypeptide binding]; other site 444178003758 urease subunit alpha; Reviewed; Region: ureC; PRK13207 444178003759 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 444178003760 subunit interactions [polypeptide binding]; other site 444178003761 active site 444178003762 flap region; other site 444178003763 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 444178003764 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 444178003765 dimer interface [polypeptide binding]; other site 444178003766 catalytic residues [active] 444178003767 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 444178003768 UreF; Region: UreF; pfam01730 444178003769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178003770 sensory histidine kinase AtoS; Provisional; Region: PRK11360 444178003771 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 444178003772 ATP binding site [chemical binding]; other site 444178003773 Mg2+ binding site [ion binding]; other site 444178003774 G-X-G motif; other site 444178003775 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 444178003776 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178003777 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178003778 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 444178003779 phenylhydantoinase; Validated; Region: PRK08323 444178003780 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 444178003781 tetramer interface [polypeptide binding]; other site 444178003782 active site 444178003783 allantoate amidohydrolase; Reviewed; Region: PRK12893 444178003784 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 444178003785 active site 444178003786 metal binding site [ion binding]; metal-binding site 444178003787 dimer interface [polypeptide binding]; other site 444178003788 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 444178003789 Helix-turn-helix domains; Region: HTH; cl00088 444178003790 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 444178003791 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 444178003792 nudix motif; other site 444178003793 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 444178003794 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 444178003795 homodimer interface [polypeptide binding]; other site 444178003796 active site 444178003797 FMN binding site [chemical binding]; other site 444178003798 substrate binding site [chemical binding]; other site 444178003799 4Fe-4S binding domain; Region: Fer4; cl02805 444178003800 4Fe-4S binding domain; Region: Fer4; cl02805 444178003801 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 444178003802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178003803 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178003804 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 444178003805 putative hydrophobic ligand binding site [chemical binding]; other site 444178003806 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 444178003807 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 444178003808 active site 444178003809 dimer interface [polypeptide binding]; other site 444178003810 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 444178003811 dimer interface [polypeptide binding]; other site 444178003812 active site 444178003813 Predicted deacylase [General function prediction only]; Region: COG3608 444178003814 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 444178003815 active site 444178003816 Zn binding site [ion binding]; other site 444178003817 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 444178003818 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 444178003819 motif II; other site 444178003820 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178003821 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 444178003822 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 444178003823 AMP-binding enzyme; Region: AMP-binding; cl15778 444178003824 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444178003825 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 444178003826 Helix-turn-helix domains; Region: HTH; cl00088 444178003827 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 444178003828 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 444178003829 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178003830 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178003831 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 444178003832 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178003833 substrate binding pocket [chemical binding]; other site 444178003834 membrane-bound complex binding site; other site 444178003835 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 444178003836 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 444178003837 DXD motif; other site 444178003838 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 444178003839 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 444178003840 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 444178003841 dimer interface [polypeptide binding]; other site 444178003842 phosphorylation site [posttranslational modification] 444178003843 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 444178003844 ATP binding site [chemical binding]; other site 444178003845 Mg2+ binding site [ion binding]; other site 444178003846 G-X-G motif; other site 444178003847 GcrA cell cycle regulator; Region: GcrA; cl11564 444178003848 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 444178003849 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 444178003850 inhibitor-cofactor binding pocket; inhibition site 444178003851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178003852 catalytic residue [active] 444178003853 ornithine carbamoyltransferase; Provisional; Region: PRK00779 444178003854 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 444178003855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178003856 Protein of unknown function (DUF525); Region: DUF525; cl01119 444178003857 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 444178003858 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 444178003859 homodimer interface [polypeptide binding]; other site 444178003860 substrate-cofactor binding pocket; other site 444178003861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178003862 catalytic residue [active] 444178003863 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 444178003864 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 444178003865 trimer interface [polypeptide binding]; other site 444178003866 active site 444178003867 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 444178003868 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 444178003869 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 444178003870 conserved cys residue [active] 444178003871 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 444178003872 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 444178003873 MatE; Region: MatE; cl10513 444178003874 MatE; Region: MatE; cl10513 444178003875 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 444178003876 quinone interaction residues [chemical binding]; other site 444178003877 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 444178003878 active site 444178003879 catalytic residues [active] 444178003880 FMN binding site [chemical binding]; other site 444178003881 substrate binding site [chemical binding]; other site 444178003882 Protein of unknown function (DUF952); Region: DUF952; cl01393 444178003883 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178003884 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 444178003885 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; cl12031 444178003886 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444178003887 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 444178003888 active site 444178003889 phosphorylation site [posttranslational modification] 444178003890 intermolecular recognition site; other site 444178003891 dimerization interface [polypeptide binding]; other site 444178003892 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 444178003893 DNA binding residues [nucleotide binding] 444178003894 dimerization interface [polypeptide binding]; other site 444178003895 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 444178003896 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 444178003897 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 444178003898 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 444178003899 substrate-cofactor binding pocket; other site 444178003900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178003901 catalytic residue [active] 444178003902 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 444178003903 putative active site [active] 444178003904 putative metal binding site [ion binding]; other site 444178003905 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 444178003906 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 444178003907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444178003908 Helix-turn-helix domains; Region: HTH; cl00088 444178003909 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 444178003910 putative dimerization interface [polypeptide binding]; other site 444178003911 LrgA family; Region: LrgA; cl00608 444178003912 LrgB-like family; Region: LrgB; cl00596 444178003913 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178003914 pantoate--beta-alanine ligase; Region: panC; TIGR00018 444178003915 Pantoate-beta-alanine ligase; Region: PanC; cd00560 444178003916 active site 444178003917 ATP-binding site [chemical binding]; other site 444178003918 pantoate-binding site; other site 444178003919 HXXH motif; other site 444178003920 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 444178003921 active site 444178003922 oligomerization interface [polypeptide binding]; other site 444178003923 metal binding site [ion binding]; metal-binding site 444178003924 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 444178003925 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 444178003926 FAD binding pocket [chemical binding]; other site 444178003927 FAD binding motif [chemical binding]; other site 444178003928 phosphate binding motif [ion binding]; other site 444178003929 beta-alpha-beta structure motif; other site 444178003930 NAD binding pocket [chemical binding]; other site 444178003931 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 444178003932 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 444178003933 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 444178003934 dimer interface [polypeptide binding]; other site 444178003935 active site 444178003936 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444178003937 catalytic residues [active] 444178003938 substrate binding site [chemical binding]; other site 444178003939 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 444178003940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178003941 NAD(P) binding pocket [chemical binding]; other site 444178003942 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 444178003943 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 444178003944 multidrug efflux protein; Reviewed; Region: PRK01766 444178003945 MatE; Region: MatE; cl10513 444178003946 MatE; Region: MatE; cl10513 444178003947 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 444178003948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 444178003949 Cache domain; Region: Cache_2; cl07034 444178003950 Histidine kinase; Region: HisKA_3; pfam07730 444178003951 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 444178003952 ATP binding site [chemical binding]; other site 444178003953 Mg2+ binding site [ion binding]; other site 444178003954 G-X-G motif; other site 444178003955 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444178003956 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 444178003957 active site 444178003958 phosphorylation site [posttranslational modification] 444178003959 intermolecular recognition site; other site 444178003960 dimerization interface [polypeptide binding]; other site 444178003961 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 444178003962 DNA binding residues [nucleotide binding] 444178003963 dimerization interface [polypeptide binding]; other site 444178003964 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 444178003965 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 444178003966 DctM-like transporters; Region: DctM; pfam06808 444178003967 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 444178003968 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 444178003969 hypothetical protein; Provisional; Region: PRK11171 444178003970 Cupin domain; Region: Cupin_2; cl09118 444178003971 Cupin domain; Region: Cupin_2; cl09118 444178003972 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 444178003973 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 444178003974 active site 444178003975 catalytic site [active] 444178003976 tetramer interface [polypeptide binding]; other site 444178003977 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 444178003978 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl01000 444178003979 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 444178003980 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; cl00159 444178003981 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 444178003982 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 444178003983 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 444178003984 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 444178003985 XdhC Rossmann domain; Region: XdhC_C; pfam13478 444178003986 LysR family transcriptional regulator; Provisional; Region: PRK14997 444178003987 Helix-turn-helix domains; Region: HTH; cl00088 444178003988 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 444178003989 putative effector binding pocket; other site 444178003990 dimerization interface [polypeptide binding]; other site 444178003991 guanine deaminase; Provisional; Region: PRK09228 444178003992 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 444178003993 active site 444178003994 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 444178003995 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 444178003996 MOFRL family; Region: MOFRL; pfam05161 444178003997 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 444178003998 FixH; Region: FixH; cl01254 444178003999 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 444178004000 4Fe-4S binding domain; Region: Fer4_5; pfam12801 444178004001 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 444178004002 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 444178004003 Cytochrome c; Region: Cytochrom_C; cl11414 444178004004 Cytochrome c; Region: Cytochrom_C; cl11414 444178004005 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 444178004006 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 444178004007 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 444178004008 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 444178004009 Low-spin heme binding site [chemical binding]; other site 444178004010 Putative water exit pathway; other site 444178004011 Binuclear center (active site) [active] 444178004012 Putative proton exit pathway; other site 444178004013 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 444178004014 metal binding site 2 [ion binding]; metal-binding site 444178004015 putative DNA binding helix; other site 444178004016 metal binding site 1 [ion binding]; metal-binding site 444178004017 dimer interface [polypeptide binding]; other site 444178004018 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 444178004019 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 444178004020 catalytic residues [active] 444178004021 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 444178004022 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 444178004023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444178004024 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 444178004025 DNA binding site [nucleotide binding] 444178004026 active site 444178004027 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 444178004028 ArsC family; Region: ArsC; pfam03960 444178004029 putative catalytic residues [active] 444178004030 Predicted membrane protein [Function unknown]; Region: COG4129 444178004031 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 444178004032 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 444178004033 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444178004034 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178004035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 444178004036 GTP-binding protein Der; Reviewed; Region: PRK00093 444178004037 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 444178004038 G1 box; other site 444178004039 GTP/Mg2+ binding site [chemical binding]; other site 444178004040 Switch I region; other site 444178004041 G2 box; other site 444178004042 Switch II region; other site 444178004043 G3 box; other site 444178004044 G4 box; other site 444178004045 G5 box; other site 444178004046 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 444178004047 G1 box; other site 444178004048 GTP/Mg2+ binding site [chemical binding]; other site 444178004049 Switch I region; other site 444178004050 G2 box; other site 444178004051 G3 box; other site 444178004052 Switch II region; other site 444178004053 G4 box; other site 444178004054 G5 box; other site 444178004055 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 444178004056 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 444178004057 ATP synthase A chain; Region: ATP-synt_A; cl00413 444178004058 ATP synthase subunit C; Region: ATP-synt_C; cl00466 444178004059 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 444178004060 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 444178004061 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 444178004062 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 444178004063 RNA/DNA hybrid binding site [nucleotide binding]; other site 444178004064 active site 444178004065 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 444178004066 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 444178004067 FeS/SAM binding site; other site 444178004068 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 444178004069 active site 444178004070 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 444178004071 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 444178004072 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 444178004073 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 444178004074 tandem repeat interface [polypeptide binding]; other site 444178004075 oligomer interface [polypeptide binding]; other site 444178004076 active site residues [active] 444178004077 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 444178004078 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 444178004079 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; cl16911 444178004080 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 444178004081 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 444178004082 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 444178004083 substrate binding pocket [chemical binding]; other site 444178004084 chain length determination region; other site 444178004085 substrate-Mg2+ binding site; other site 444178004086 catalytic residues [active] 444178004087 aspartate-rich region 1; other site 444178004088 active site lid residues [active] 444178004089 aspartate-rich region 2; other site 444178004090 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 444178004091 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 444178004092 binding surface 444178004093 TPR motif; other site 444178004094 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 444178004095 binding surface 444178004096 TPR motif; other site 444178004097 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 444178004098 dimer interface [polypeptide binding]; other site 444178004099 motif 1; other site 444178004100 active site 444178004101 motif 2; other site 444178004102 motif 3; other site 444178004103 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 444178004104 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 444178004105 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 444178004106 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 444178004107 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 444178004108 FAD binding domain; Region: FAD_binding_4; pfam01565 444178004109 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 444178004110 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 444178004111 enoyl-CoA hydratase; Provisional; Region: PRK06688 444178004112 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 444178004113 substrate binding site [chemical binding]; other site 444178004114 oxyanion hole (OAH) forming residues; other site 444178004115 trimer interface [polypeptide binding]; other site 444178004116 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 444178004117 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 444178004118 active site 444178004119 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 444178004120 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 444178004121 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 444178004122 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178004123 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 444178004124 UbiA prenyltransferase family; Region: UbiA; cl00337 444178004125 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 444178004126 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 444178004127 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 444178004128 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 444178004129 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 444178004130 HSP70 interaction site [polypeptide binding]; other site 444178004131 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 444178004132 dimer interface [polypeptide binding]; other site 444178004133 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 444178004134 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 444178004135 NAD binding site [chemical binding]; other site 444178004136 homotetramer interface [polypeptide binding]; other site 444178004137 homodimer interface [polypeptide binding]; other site 444178004138 substrate binding site [chemical binding]; other site 444178004139 active site 444178004140 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 444178004141 catalytic core [active] 444178004142 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 protein; Region: CSP_CDS; cd04458 444178004143 DNA-binding site [nucleotide binding]; DNA binding site 444178004144 RNA-binding motif; other site 444178004145 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 444178004146 putative acyl-acceptor binding pocket; other site 444178004147 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 444178004148 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 444178004149 Tetramer interface [polypeptide binding]; other site 444178004150 active site 444178004151 FMN-binding site [chemical binding]; other site 444178004152 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 444178004153 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 444178004154 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; cl00522 444178004155 dimerization interface [polypeptide binding]; other site 444178004156 active site 444178004157 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 444178004158 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 444178004159 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 444178004160 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 444178004161 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 444178004162 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 444178004163 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 444178004164 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 444178004165 TPP-binding site; other site 444178004166 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 444178004167 PYR/PP interface [polypeptide binding]; other site 444178004168 dimer interface [polypeptide binding]; other site 444178004169 TPP binding site [chemical binding]; other site 444178004170 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 444178004171 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 444178004172 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 444178004173 RNA binding surface [nucleotide binding]; other site 444178004174 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 444178004175 S-adenosylmethionine binding site [chemical binding]; other site 444178004176 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 444178004177 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; cl16911 444178004178 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 444178004179 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 444178004180 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 444178004181 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444178004182 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178004183 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 444178004184 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 444178004185 Walker A/P-loop; other site 444178004186 ATP binding site [chemical binding]; other site 444178004187 Q-loop/lid; other site 444178004188 ABC transporter signature motif; other site 444178004189 Walker B; other site 444178004190 D-loop; other site 444178004191 H-loop/switch region; other site 444178004192 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 444178004193 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 444178004194 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 444178004195 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 444178004196 classical (c) SDRs; Region: SDR_c; cd05233 444178004197 NAD(P) binding site [chemical binding]; other site 444178004198 active site 444178004199 amidophosphoribosyltransferase; Provisional; Region: PRK09123 444178004200 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 444178004201 active site 444178004202 tetramer interface [polypeptide binding]; other site 444178004203 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444178004204 active site 444178004205 Colicin V production protein; Region: Colicin_V; cl00567 444178004206 DNA repair protein RadA; Provisional; Region: PRK11823 444178004207 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 444178004208 Walker A motif/ATP binding site; other site 444178004209 ATP binding site [chemical binding]; other site 444178004210 Walker B motif; other site 444178004211 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 444178004212 replicative DNA helicase; Provisional; Region: PRK09165 444178004213 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 444178004214 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 444178004215 Walker A motif; other site 444178004216 ATP binding site [chemical binding]; other site 444178004217 Walker B motif; other site 444178004218 DNA binding loops [nucleotide binding] 444178004219 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 444178004220 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 444178004221 S-adenosylmethionine binding site [chemical binding]; other site 444178004222 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 444178004223 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 444178004224 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 444178004225 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 444178004226 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 444178004227 Acyl transferase domain; Region: Acyl_transf_1; cl08282 444178004228 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 444178004229 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 444178004230 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 444178004231 NAD(P) binding site [chemical binding]; other site 444178004232 homotetramer interface [polypeptide binding]; other site 444178004233 homodimer interface [polypeptide binding]; other site 444178004234 active site 444178004235 Phosphopantetheine attachment site; Region: PP-binding; cl09936 444178004236 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 444178004237 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 444178004238 dimer interface [polypeptide binding]; other site 444178004239 active site 444178004240 YceG-like family; Region: YceG; pfam02618 444178004241 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 444178004242 dimerization interface [polypeptide binding]; other site 444178004243 hypothetical protein; Provisional; Region: PRK11820 444178004244 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 444178004245 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 444178004246 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 444178004247 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 444178004248 catalytic site [active] 444178004249 G-X2-G-X-G-K; other site 444178004250 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 444178004251 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 444178004252 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 444178004253 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 444178004254 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 444178004255 Subunit I/III interface [polypeptide binding]; other site 444178004256 D-pathway; other site 444178004257 Subunit I/VIIc interface [polypeptide binding]; other site 444178004258 Subunit I/IV interface [polypeptide binding]; other site 444178004259 Subunit I/II interface [polypeptide binding]; other site 444178004260 Low-spin heme (heme a) binding site [chemical binding]; other site 444178004261 Subunit I/VIIa interface [polypeptide binding]; other site 444178004262 Subunit I/VIa interface [polypeptide binding]; other site 444178004263 Dimer interface; other site 444178004264 Putative water exit pathway; other site 444178004265 Binuclear center (heme a3/CuB) [ion binding]; other site 444178004266 K-pathway; other site 444178004267 Subunit I/Vb interface [polypeptide binding]; other site 444178004268 Putative proton exit pathway; other site 444178004269 Subunit I/VIb interface; other site 444178004270 Subunit I/VIc interface [polypeptide binding]; other site 444178004271 Electron transfer pathway; other site 444178004272 Subunit I/VIIIb interface [polypeptide binding]; other site 444178004273 Subunit I/VIIb interface [polypeptide binding]; other site 444178004274 UbiA prenyltransferase family; Region: UbiA; cl00337 444178004275 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 444178004276 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 444178004277 Subunit III/VIIa interface [polypeptide binding]; other site 444178004278 Phospholipid binding site [chemical binding]; other site 444178004279 Subunit I/III interface [polypeptide binding]; other site 444178004280 Subunit III/VIb interface [polypeptide binding]; other site 444178004281 Subunit III/VIa interface; other site 444178004282 Subunit III/Vb interface [polypeptide binding]; other site 444178004283 Protein of unknown function (DUF983); Region: DUF983; cl02211 444178004284 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 444178004285 LytB protein; Region: LYTB; cl00507 444178004286 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 444178004287 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 444178004288 Phosphotransferase enzyme family; Region: APH; pfam01636 444178004289 putative active site [active] 444178004290 putative substrate binding site [chemical binding]; other site 444178004291 ATP binding site [chemical binding]; other site 444178004292 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 444178004293 RNA/DNA hybrid binding site [nucleotide binding]; other site 444178004294 active site 444178004295 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 444178004296 catalytic triad [active] 444178004297 dimer interface [polypeptide binding]; other site 444178004298 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 444178004299 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 444178004300 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 444178004301 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 444178004302 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 444178004303 PAS fold; Region: PAS_3; pfam08447 444178004304 putative active site [active] 444178004305 heme pocket [chemical binding]; other site 444178004306 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444178004307 metal binding site [ion binding]; metal-binding site 444178004308 active site 444178004309 I-site; other site 444178004310 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 444178004311 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 444178004312 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178004313 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 444178004314 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 444178004315 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 444178004316 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 444178004317 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 444178004318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178004319 catalytic residue [active] 444178004320 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 444178004321 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 444178004322 active site 444178004323 motif I; other site 444178004324 motif II; other site 444178004325 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444178004326 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; cl16911 444178004327 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 444178004328 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178004329 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 444178004330 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 444178004331 minor groove reading motif; other site 444178004332 helix-hairpin-helix signature motif; other site 444178004333 substrate binding pocket [chemical binding]; other site 444178004334 active site 444178004335 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 444178004336 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 444178004337 DNA binding and oxoG recognition site [nucleotide binding] 444178004338 Protein of unknown function (DUF721); Region: DUF721; cl02324 444178004339 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 444178004340 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 444178004341 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 444178004342 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 444178004343 Walker A/P-loop; other site 444178004344 ATP binding site [chemical binding]; other site 444178004345 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 444178004346 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 444178004347 ABC transporter signature motif; other site 444178004348 Walker B; other site 444178004349 D-loop; other site 444178004350 H-loop/switch region; other site 444178004351 Cation efflux family; Region: Cation_efflux; cl00316 444178004352 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178004353 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 444178004354 pyruvate phosphate dikinase; Provisional; Region: PRK09279 444178004355 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 444178004356 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 444178004357 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; cl09155 444178004358 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 444178004359 NodB motif; other site 444178004360 putative active site [active] 444178004361 putative catalytic site [active] 444178004362 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 444178004363 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 444178004364 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 444178004365 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 444178004366 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 444178004367 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 444178004368 active site 444178004369 homotetramer interface [polypeptide binding]; other site 444178004370 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 444178004371 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 444178004372 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 444178004373 NAD(P) binding site [chemical binding]; other site 444178004374 homodimer interface [polypeptide binding]; other site 444178004375 substrate binding site [chemical binding]; other site 444178004376 active site 444178004377 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 444178004378 Mg++ binding site [ion binding]; other site 444178004379 putative catalytic motif [active] 444178004380 putative substrate binding site [chemical binding]; other site 444178004381 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 444178004382 active site 444178004383 substrate binding site [chemical binding]; other site 444178004384 cosubstrate binding site; other site 444178004385 catalytic site [active] 444178004386 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 444178004387 Walker A/P-loop; other site 444178004388 ATP binding site [chemical binding]; other site 444178004389 ABC transporter; Region: ABC_tran; pfam00005 444178004390 Q-loop/lid; other site 444178004391 ABC transporter signature motif; other site 444178004392 Walker B; other site 444178004393 D-loop; other site 444178004394 ABC-2 type transporter; Region: ABC2_membrane; cl11417 444178004395 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 444178004396 inhibitor-cofactor binding pocket; inhibition site 444178004397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178004398 catalytic residue [active] 444178004399 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 444178004400 homotetramer interface [polypeptide binding]; other site 444178004401 NADP-binding site; other site 444178004402 substrate binding site [chemical binding]; other site 444178004403 homodimer interface [polypeptide binding]; other site 444178004404 active site 444178004405 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004406 Integrase core domain; Region: rve; cl01316 444178004407 DDE domain; Region: DDE_Tnp_IS240; pfam13610 444178004408 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004409 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 444178004410 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 444178004411 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004412 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004413 Integrase core domain; Region: rve; cl01316 444178004414 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004415 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004416 Integrase core domain; Region: rve_3; cl15866 444178004417 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 444178004418 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 444178004419 active site 444178004420 substrate binding site [chemical binding]; other site 444178004421 metal binding site [ion binding]; metal-binding site 444178004422 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 444178004423 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 444178004424 Substrate binding site; other site 444178004425 Cupin domain; Region: Cupin_2; cl09118 444178004426 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 444178004427 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 444178004428 Walker A/P-loop; other site 444178004429 ATP binding site [chemical binding]; other site 444178004430 Q-loop/lid; other site 444178004431 ABC transporter signature motif; other site 444178004432 Walker B; other site 444178004433 D-loop; other site 444178004434 H-loop/switch region; other site 444178004435 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 444178004436 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 444178004437 TM-ABC transporter signature motif; other site 444178004438 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 444178004439 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 444178004440 putative ligand binding site [chemical binding]; other site 444178004441 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 444178004442 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 444178004443 DNA interaction; other site 444178004444 Metal-binding active site; metal-binding site 444178004445 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 444178004446 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178004447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178004448 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 444178004449 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 444178004450 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 444178004451 N- and C-terminal domain interface [polypeptide binding]; other site 444178004452 D-xylulose kinase; Region: XylB; TIGR01312 444178004453 active site 444178004454 catalytic site [active] 444178004455 metal binding site [ion binding]; metal-binding site 444178004456 xylulose binding site [chemical binding]; other site 444178004457 putative ATP binding site [chemical binding]; other site 444178004458 homodimer interface [polypeptide binding]; other site 444178004459 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444178004460 DNA binding site [nucleotide binding] 444178004461 domain linker motif; other site 444178004462 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 444178004463 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 444178004464 putative ligand binding site [chemical binding]; other site 444178004465 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 444178004466 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444178004467 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178004468 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 444178004469 tetrameric interface [polypeptide binding]; other site 444178004470 NAD binding site [chemical binding]; other site 444178004471 catalytic residues [active] 444178004472 choline dehydrogenase; Validated; Region: PRK02106 444178004473 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 444178004474 transcriptional regulator BetI; Validated; Region: PRK00767 444178004475 Helix-turn-helix domains; Region: HTH; cl00088 444178004476 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 444178004477 L-asparaginase II; Region: Asparaginase_II; cl01842 444178004478 transcription elongation factor regulatory protein; Validated; Region: PRK06342 444178004479 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 444178004480 Fic/DOC family; Region: Fic; cl00960 444178004481 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 444178004482 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 444178004483 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 444178004484 Transcriptional regulators [Transcription]; Region: FadR; COG2186 444178004485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178004486 DNA-binding site [nucleotide binding]; DNA binding site 444178004487 FCD domain; Region: FCD; cl11656 444178004488 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 444178004489 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 444178004490 putative substrate translocation pore; other site 444178004491 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 444178004492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178004493 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 444178004494 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 444178004495 motif II; other site 444178004496 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 444178004497 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 444178004498 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 444178004499 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 444178004500 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; cl12031 444178004501 Predicted transcriptional regulator [Transcription]; Region: COG4957 444178004502 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 444178004503 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 444178004504 DnaA box-binding interface [nucleotide binding]; other site 444178004505 Fe-S metabolism associated domain; Region: SufE; cl00951 444178004506 Flavin Reductases; Region: FlaRed; cl00801 444178004507 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 444178004508 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 444178004509 dimer interface [polypeptide binding]; other site 444178004510 phosphorylation site [posttranslational modification] 444178004511 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 444178004512 ATP binding site [chemical binding]; other site 444178004513 Mg2+ binding site [ion binding]; other site 444178004514 G-X-G motif; other site 444178004515 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 444178004516 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 444178004517 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 444178004518 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 444178004519 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 444178004520 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 444178004521 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 444178004522 Transglycosylase; Region: Transgly; cl07896 444178004523 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 444178004524 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178004525 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 444178004526 Uncharacterized conserved protein [Function unknown]; Region: COG5323 444178004527 Uncharacterized conserved protein [Function unknown]; Region: COG5323 444178004528 Phage-related protein [Function unknown]; Region: COG4695; cl01923 444178004529 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 444178004530 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 444178004531 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 444178004532 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 444178004533 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 444178004534 oligomerization interface [polypeptide binding]; other site 444178004535 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 444178004536 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 444178004537 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 444178004538 Phage-related minor tail protein [Function unknown]; Region: COG5281 444178004539 NlpC/P60 family; Region: NLPC_P60; cl11438 444178004540 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 444178004541 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444178004542 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 444178004543 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 444178004544 active site 444178004545 phosphorylation site [posttranslational modification] 444178004546 intermolecular recognition site; other site 444178004547 dimerization interface [polypeptide binding]; other site 444178004548 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 444178004549 DNA binding site [nucleotide binding] 444178004550 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 444178004551 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 444178004552 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 444178004553 ATP binding site [chemical binding]; other site 444178004554 Mg2+ binding site [ion binding]; other site 444178004555 G-X-G motif; other site 444178004556 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 444178004557 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 444178004558 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 444178004559 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 444178004560 CcmE; Region: CcmE; cl00994 444178004561 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 444178004562 Cytochrome C biogenesis protein; Region: CcmH; cl01179 444178004563 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 444178004564 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 444178004565 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 444178004566 protein binding site [polypeptide binding]; other site 444178004567 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 444178004568 protein binding site [polypeptide binding]; other site 444178004569 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 444178004570 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 444178004571 active site 444178004572 phosphorylation site [posttranslational modification] 444178004573 intermolecular recognition site; other site 444178004574 dimerization interface [polypeptide binding]; other site 444178004575 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 444178004576 DNA binding site [nucleotide binding] 444178004577 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 444178004578 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 444178004579 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 444178004580 dimer interface [polypeptide binding]; other site 444178004581 phosphorylation site [posttranslational modification] 444178004582 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 444178004583 ATP binding site [chemical binding]; other site 444178004584 Mg2+ binding site [ion binding]; other site 444178004585 G-X-G motif; other site 444178004586 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 444178004587 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 444178004588 metal binding triad; other site 444178004589 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 444178004590 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 444178004591 metal binding triad; other site 444178004592 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 444178004593 O-Antigen ligase; Region: Wzy_C; cl04850 444178004594 PAS fold; Region: PAS_3; pfam08447 444178004595 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 444178004596 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 444178004597 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 444178004598 dimer interface [polypeptide binding]; other site 444178004599 phosphorylation site [posttranslational modification] 444178004600 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 444178004601 ATP binding site [chemical binding]; other site 444178004602 Mg2+ binding site [ion binding]; other site 444178004603 G-X-G motif; other site 444178004604 aminopeptidase N; Provisional; Region: pepN; PRK14015 444178004605 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 444178004606 active site 444178004607 Zn binding site [ion binding]; other site 444178004608 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 444178004609 EamA-like transporter family; Region: EamA; cl01037 444178004610 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 444178004611 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444178004612 putative substrate translocation pore; other site 444178004613 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 444178004614 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 444178004615 Fe-S cluster binding site [ion binding]; other site 444178004616 active site 444178004617 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 444178004618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178004619 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 444178004620 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 444178004621 putative catalytic site [active] 444178004622 putative metal binding site [ion binding]; other site 444178004623 putative phosphate binding site [ion binding]; other site 444178004624 AMP nucleosidase; Provisional; Region: PRK08292 444178004625 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 444178004626 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 444178004627 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 444178004628 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 444178004629 C-terminal domain interface [polypeptide binding]; other site 444178004630 GSH binding site (G-site) [chemical binding]; other site 444178004631 dimer interface [polypeptide binding]; other site 444178004632 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 444178004633 N-terminal domain interface [polypeptide binding]; other site 444178004634 putative dimer interface [polypeptide binding]; other site 444178004635 active site 444178004636 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 444178004637 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 444178004638 Uncharacterized conserved protein [Function unknown]; Region: COG1284 444178004639 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 444178004640 Protein of unknown function (DUF423); Region: DUF423; cl01008 444178004641 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 444178004642 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 444178004643 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178004644 homodimer interface [polypeptide binding]; other site 444178004645 catalytic residue [active] 444178004646 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 444178004647 active site 444178004648 DNA binding site [nucleotide binding] 444178004649 Int/Topo IB signature motif; other site 444178004650 Porin subfamily; Region: Porin_2; pfam02530 444178004651 Uncharacterized conserved protein [Function unknown]; Region: COG3743 444178004652 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 444178004653 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 444178004654 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444178004655 catalytic residue [active] 444178004656 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 444178004657 dihydrodipicolinate synthase; Region: dapA; TIGR00674 444178004658 dimer interface [polypeptide binding]; other site 444178004659 active site 444178004660 catalytic residue [active] 444178004661 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 444178004662 SmpB-tmRNA interface; other site 444178004663 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 444178004664 Fe-S cluster binding site [ion binding]; other site 444178004665 DNA binding site [nucleotide binding] 444178004666 active site 444178004667 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 444178004668 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 444178004669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 444178004670 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 444178004671 synthetase active site [active] 444178004672 NTP binding site [chemical binding]; other site 444178004673 metal binding site [ion binding]; metal-binding site 444178004674 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 444178004675 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 444178004676 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444178004677 active site 444178004678 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 444178004679 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 444178004680 ligand binding site [chemical binding]; other site 444178004681 flexible hinge region; other site 444178004682 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 444178004683 putative switch regulator; other site 444178004684 non-specific DNA interactions [nucleotide binding]; other site 444178004685 DNA binding site [nucleotide binding] 444178004686 sequence specific DNA binding site [nucleotide binding]; other site 444178004687 putative cAMP binding site [chemical binding]; other site 444178004688 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 444178004689 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 444178004690 FeS/SAM binding site; other site 444178004691 HemN C-terminal domain; Region: HemN_C; pfam06969 444178004692 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 444178004693 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444178004694 putative substrate translocation pore; other site 444178004695 Cupin domain; Region: Cupin_2; cl09118 444178004696 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 444178004697 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 444178004698 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 444178004699 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 444178004700 Catalytic site [active] 444178004701 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 444178004702 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 444178004703 ribonuclease III; Reviewed; Region: PRK12371 444178004704 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 444178004705 dimerization interface [polypeptide binding]; other site 444178004706 active site 444178004707 metal binding site [ion binding]; metal-binding site 444178004708 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 444178004709 dsRNA binding site [nucleotide binding]; other site 444178004710 GTPase Era; Reviewed; Region: era; PRK00089 444178004711 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 444178004712 G1 box; other site 444178004713 GTP/Mg2+ binding site [chemical binding]; other site 444178004714 Switch I region; other site 444178004715 G2 box; other site 444178004716 Switch II region; other site 444178004717 G3 box; other site 444178004718 G4 box; other site 444178004719 G5 box; other site 444178004720 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 444178004721 Recombination protein O N terminal; Region: RecO_N; cl15812 444178004722 DNA repair protein RecO; Region: reco; TIGR00613 444178004723 Recombination protein O C terminal; Region: RecO_C; pfam02565 444178004724 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 444178004725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 444178004726 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 444178004727 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 444178004728 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 444178004729 dihydroorotase; Validated; Region: PRK09060 444178004730 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 444178004731 active site 444178004732 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 444178004733 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_15; cd04673 444178004734 nudix motif; other site 444178004735 LysE type translocator; Region: LysE; cl00565 444178004736 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 444178004737 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444178004738 active site 444178004739 HIGH motif; other site 444178004740 nucleotide binding site [chemical binding]; other site 444178004741 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 444178004742 KMSKS motif; other site 444178004743 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 444178004744 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 444178004745 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 444178004746 active site 444178004747 catalytic residues [active] 444178004748 metal binding site [ion binding]; metal-binding site 444178004749 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 444178004750 Predicted permeases [General function prediction only]; Region: RarD; COG2962 444178004751 Peptidase family M23; Region: Peptidase_M23; pfam01551 444178004752 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 444178004753 S-adenosylmethionine binding site [chemical binding]; other site 444178004754 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 444178004755 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 444178004756 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 444178004757 SurA N-terminal domain; Region: SurA_N_3; cl07813 444178004758 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 444178004759 OstA-like protein; Region: OstA; cl00844 444178004760 Organic solvent tolerance protein; Region: OstA_C; pfam04453 444178004761 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 444178004762 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 444178004763 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 444178004764 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 444178004765 multifunctional aminopeptidase A; Provisional; Region: PRK00913 444178004766 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 444178004767 interface (dimer of trimers) [polypeptide binding]; other site 444178004768 Substrate-binding/catalytic site; other site 444178004769 Zn-binding sites [ion binding]; other site 444178004770 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 444178004771 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 444178004772 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 444178004773 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 444178004774 ABC transporter; Region: ABC_tran_2; pfam12848 444178004775 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 444178004776 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 444178004777 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 444178004778 active site 444178004779 multimer interface [polypeptide binding]; other site 444178004780 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 444178004781 META domain; Region: META; cl01245 444178004782 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 444178004783 MoaE homodimer interface [polypeptide binding]; other site 444178004784 MoaD interaction [polypeptide binding]; other site 444178004785 active site residues [active] 444178004786 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 444178004787 MoaE interaction surface [polypeptide binding]; other site 444178004788 MoeB interaction surface [polypeptide binding]; other site 444178004789 thiocarboxylated glycine; other site 444178004790 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 444178004791 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 444178004792 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 444178004793 GIY-YIG motif/motif A; other site 444178004794 active site 444178004795 catalytic site [active] 444178004796 putative DNA binding site [nucleotide binding]; other site 444178004797 metal binding site [ion binding]; metal-binding site 444178004798 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 444178004799 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 444178004800 pteridine reductase; Provisional; Region: PRK09135 444178004801 NADP binding site [chemical binding]; other site 444178004802 substrate binding pocket [chemical binding]; other site 444178004803 active site 444178004804 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178004805 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 444178004806 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 444178004807 putative C-terminal domain interface [polypeptide binding]; other site 444178004808 putative GSH binding site (G-site) [chemical binding]; other site 444178004809 putative dimer interface [polypeptide binding]; other site 444178004810 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 444178004811 dimer interface [polypeptide binding]; other site 444178004812 N-terminal domain interface [polypeptide binding]; other site 444178004813 putative substrate binding pocket (H-site) [chemical binding]; other site 444178004814 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 444178004815 B1 nucleotide binding pocket [chemical binding]; other site 444178004816 B2 nucleotide binding pocket [chemical binding]; other site 444178004817 CAS motifs; other site 444178004818 active site 444178004819 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 444178004820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178004821 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 444178004822 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 444178004823 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 444178004824 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 444178004825 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 444178004826 putative [4Fe-4S] binding site [ion binding]; other site 444178004827 putative molybdopterin cofactor binding site [chemical binding]; other site 444178004828 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 444178004829 putative molybdopterin cofactor binding site; other site 444178004830 Protein of unknown function (DUF992); Region: DUF992; pfam06186 444178004831 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 444178004832 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 444178004833 active site 444178004834 substrate binding site [chemical binding]; other site 444178004835 cosubstrate binding site; other site 444178004836 catalytic site [active] 444178004837 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 444178004838 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 444178004839 dimerization interface [polypeptide binding]; other site 444178004840 putative ATP binding site [chemical binding]; other site 444178004841 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 444178004842 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178004843 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 444178004844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178004845 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 444178004846 NAD(P) binding site [chemical binding]; other site 444178004847 active site 444178004848 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 444178004849 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 444178004850 putative NAD(P) binding site [chemical binding]; other site 444178004851 putative active site [active] 444178004852 glycolate transporter; Provisional; Region: PRK09695 444178004853 L-lactate permease; Region: Lactate_perm; cl00701 444178004854 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 444178004855 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 444178004856 active site 444178004857 catalytic site [active] 444178004858 substrate binding site [chemical binding]; other site 444178004859 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178004860 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 444178004861 non-specific DNA binding site [nucleotide binding]; other site 444178004862 salt bridge; other site 444178004863 sequence-specific DNA binding site [nucleotide binding]; other site 444178004864 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 444178004865 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004866 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004867 AAA domain; Region: AAA_22; pfam13401 444178004868 Domain of unknown function (DUF955); Region: DUF955; cl01076 444178004869 TIR domain; Region: TIR_2; cl15770 444178004870 Bacterial SH3 domain; Region: SH3_3; cl02551 444178004871 cystathionine beta-lyase; Provisional; Region: PRK05967 444178004872 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 444178004873 homodimer interface [polypeptide binding]; other site 444178004874 substrate-cofactor binding pocket; other site 444178004875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178004876 catalytic residue [active] 444178004877 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 444178004878 active site 444178004879 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 444178004880 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178004881 substrate binding pocket [chemical binding]; other site 444178004882 membrane-bound complex binding site; other site 444178004883 hinge residues; other site 444178004884 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 444178004885 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 444178004886 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 444178004887 putative PBP binding loops; other site 444178004888 dimer interface [polypeptide binding]; other site 444178004889 ABC-ATPase subunit interface; other site 444178004890 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 444178004891 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 444178004892 dimer interface [polypeptide binding]; other site 444178004893 conserved gate region; other site 444178004894 putative PBP binding loops; other site 444178004895 ABC-ATPase subunit interface; other site 444178004896 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 444178004897 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 444178004898 Walker A/P-loop; other site 444178004899 ATP binding site [chemical binding]; other site 444178004900 Q-loop/lid; other site 444178004901 ABC transporter signature motif; other site 444178004902 Walker B; other site 444178004903 D-loop; other site 444178004904 H-loop/switch region; other site 444178004905 salicylate hydroxylase; Provisional; Region: PRK06475 444178004906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178004907 Zinc-finger domain; Region: zf-CHCC; cl01821 444178004908 polyphosphate kinase; Provisional; Region: PRK05443 444178004909 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 444178004910 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 444178004911 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 444178004912 putative domain interface [polypeptide binding]; other site 444178004913 putative active site [active] 444178004914 catalytic site [active] 444178004915 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 444178004916 putative domain interface [polypeptide binding]; other site 444178004917 putative active site [active] 444178004918 catalytic site [active] 444178004919 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 444178004920 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 444178004921 ribonuclease D; Region: rnd; TIGR01388 444178004922 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 444178004923 catalytic site [active] 444178004924 putative active site [active] 444178004925 putative substrate binding site [chemical binding]; other site 444178004926 HRDC domain; Region: HRDC; cl02578 444178004927 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 444178004928 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 444178004929 dimer interface [polypeptide binding]; other site 444178004930 anticodon binding site; other site 444178004931 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 the...; Region: AspRS_core; cd00777 444178004932 homodimer interface [polypeptide binding]; other site 444178004933 motif 1; other site 444178004934 active site 444178004935 motif 2; other site 444178004936 GAD domain; Region: GAD; pfam02938 444178004937 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 attaches...; Region: class_II_aaRS-like_core; cl00268 444178004938 active site 444178004939 motif 3; other site 444178004940 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178004941 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 444178004942 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 in DNA...; Region: TOP4c; cd00187 444178004943 CAP-like domain; other site 444178004944 active site 444178004945 primary dimer interface [polypeptide binding]; other site 444178004946 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444178004947 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 444178004948 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 444178004949 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178004950 RDD family; Region: RDD; cl00746 444178004951 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 444178004952 dimer interface [polypeptide binding]; other site 444178004953 allosteric magnesium binding site [ion binding]; other site 444178004954 active site 444178004955 aspartate-rich active site metal binding site; other site 444178004956 Schiff base residues; other site 444178004957 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 444178004958 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 444178004959 substrate binding site [chemical binding]; other site 444178004960 oxyanion hole (OAH) forming residues; other site 444178004961 trimer interface [polypeptide binding]; other site 444178004962 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; cl15762 444178004963 Transcriptional regulators [Transcription]; Region: MarR; COG1846 444178004964 Helix-turn-helix domains; Region: HTH; cl00088 444178004965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 444178004966 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 444178004967 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178004968 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178004969 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 444178004970 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 444178004971 dimer interface [polypeptide binding]; other site 444178004972 active site 444178004973 glycine-pyridoxal phosphate binding site [chemical binding]; other site 444178004974 folate binding site [chemical binding]; other site 444178004975 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 444178004976 ATP cone domain; Region: ATP-cone; pfam03477 444178004977 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 444178004978 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 444178004979 catalytic motif [active] 444178004980 Zn binding site [ion binding]; other site 444178004981 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; cl00161 444178004982 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 444178004983 Lumazine binding domain; Region: Lum_binding; pfam00677 444178004984 Lumazine binding domain; Region: Lum_binding; pfam00677 444178004985 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 444178004986 homopentamer interface [polypeptide binding]; other site 444178004987 active site 444178004988 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 444178004989 putative RNA binding site [nucleotide binding]; other site 444178004990 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 444178004991 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 444178004992 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 444178004993 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 444178004994 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 444178004995 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 444178004996 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 444178004997 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 444178004998 dimer interface [polypeptide binding]; other site 444178004999 active site 444178005000 CoA binding pocket [chemical binding]; other site 444178005001 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 444178005002 IHF dimer interface [polypeptide binding]; other site 444178005003 IHF - DNA interface [nucleotide binding]; other site 444178005004 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 444178005005 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 444178005006 DNA binding residues [nucleotide binding] 444178005007 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 444178005008 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 444178005009 Bacterial sugar transferase; Region: Bac_transf; cl00939 444178005010 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 444178005011 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 444178005012 SLBB domain; Region: SLBB; pfam10531 444178005013 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 444178005014 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 444178005015 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178005016 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 444178005017 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 444178005018 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 444178005019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178005020 Arginase family; Region: Arginase; cl00306 444178005021 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 444178005022 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 444178005023 23S rRNA interface [nucleotide binding]; other site 444178005024 L3 interface [polypeptide binding]; other site 444178005025 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 444178005026 CoenzymeA binding site [chemical binding]; other site 444178005027 subunit interaction site [polypeptide binding]; other site 444178005028 PHB binding site; other site 444178005029 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 444178005030 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 444178005031 homodimer interface [polypeptide binding]; other site 444178005032 substrate-cofactor binding pocket; other site 444178005033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178005034 catalytic residue [active] 444178005035 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 444178005036 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 444178005037 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 444178005038 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 444178005039 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 444178005040 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 444178005041 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 444178005042 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 444178005043 putative dimer interface [polypeptide binding]; other site 444178005044 [2Fe-2S] cluster binding site [ion binding]; other site 444178005045 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 444178005046 SLBB domain; Region: SLBB; pfam10531 444178005047 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 444178005048 NADH dehydrogenase subunit G; Validated; Region: PRK09130 444178005049 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 444178005050 catalytic loop [active] 444178005051 iron binding site [ion binding]; other site 444178005052 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 444178005053 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 444178005054 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 444178005055 NADH dehydrogenase; Region: NADHdh; cl00469 444178005056 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 444178005057 4Fe-4S binding domain; Region: Fer4; cl02805 444178005058 4Fe-4S binding domain; Region: Fer4; cl02805 444178005059 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 444178005060 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 444178005061 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 444178005062 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 444178005063 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 444178005064 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 444178005065 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 444178005066 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 444178005067 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 444178005068 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 444178005069 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 444178005070 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 444178005071 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 444178005072 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 444178005073 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 444178005074 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178005075 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 444178005076 dimer interface [polypeptide binding]; other site 444178005077 substrate binding site [chemical binding]; other site 444178005078 metal binding site [ion binding]; metal-binding site 444178005079 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 444178005080 prolyl-tRNA synthetase; Provisional; Region: PRK12325 444178005081 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 formation of...; Region: ProRS_core_prok; cd00779 444178005082 dimer interface [polypeptide binding]; other site 444178005083 motif 1; other site 444178005084 active site 444178005085 motif 2; other site 444178005086 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 attaches...; Region: class_II_aaRS-like_core; cl00268 444178005087 active site 444178005088 motif 3; other site 444178005089 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 444178005090 anticodon binding site; other site 444178005091 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 444178005092 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 444178005093 FtsX-like permease family; Region: FtsX; cl15850 444178005094 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 444178005095 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 444178005096 Walker A/P-loop; other site 444178005097 ATP binding site [chemical binding]; other site 444178005098 Q-loop/lid; other site 444178005099 ABC transporter signature motif; other site 444178005100 Walker B; other site 444178005101 D-loop; other site 444178005102 H-loop/switch region; other site 444178005103 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 444178005104 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 444178005105 Protein of unknown function, DUF655; Region: DUF655; pfam04919 444178005106 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 444178005107 generic binding surface II; other site 444178005108 generic binding surface I; other site 444178005109 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 444178005110 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 444178005111 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 444178005112 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 444178005113 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 444178005114 RNA binding surface [nucleotide binding]; other site 444178005115 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 444178005116 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 444178005117 Ligand Binding Site [chemical binding]; other site 444178005118 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 444178005119 active site 444178005120 putative lithium-binding site [ion binding]; other site 444178005121 substrate binding site [chemical binding]; other site 444178005122 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 444178005123 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 444178005124 putative substrate translocation pore; other site 444178005125 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 444178005126 putative GSH binding site [chemical binding]; other site 444178005127 catalytic residues [active] 444178005128 BolA-like protein; Region: BolA; cl00386 444178005129 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 444178005130 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 444178005131 dimerization interface [polypeptide binding]; other site 444178005132 ATP binding site [chemical binding]; other site 444178005133 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 444178005134 dimerization interface [polypeptide binding]; other site 444178005135 ATP binding site [chemical binding]; other site 444178005136 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 444178005137 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 444178005138 C-terminal domain interface [polypeptide binding]; other site 444178005139 GSH binding site (G-site) [chemical binding]; other site 444178005140 dimer interface [polypeptide binding]; other site 444178005141 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 444178005142 N-terminal domain interface [polypeptide binding]; other site 444178005143 dimer interface [polypeptide binding]; other site 444178005144 substrate binding pocket (H-site) [chemical binding]; other site 444178005145 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 444178005146 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 444178005147 putative active site [active] 444178005148 catalytic triad [active] 444178005149 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 444178005150 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 444178005151 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 444178005152 ATP binding site [chemical binding]; other site 444178005153 active site 444178005154 substrate binding site [chemical binding]; other site 444178005155 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 444178005156 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; cl09155 444178005157 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; cl12031 444178005158 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178005159 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 444178005160 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 444178005161 putative metal binding site [ion binding]; other site 444178005162 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 444178005163 active site 444178005164 adenylosuccinate lyase; Provisional; Region: PRK07492 444178005165 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 444178005166 tetramer interface [polypeptide binding]; other site 444178005167 active site 444178005168 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 444178005169 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 444178005170 substrate binding site [chemical binding]; other site 444178005171 hexamer interface [polypeptide binding]; other site 444178005172 metal binding site [ion binding]; metal-binding site 444178005173 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 444178005174 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 444178005175 putative acyl-acceptor binding pocket; other site 444178005176 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 444178005177 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 444178005178 putative NAD(P) binding site [chemical binding]; other site 444178005179 structural Zn binding site [ion binding]; other site 444178005180 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 444178005181 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 444178005182 dimer interface [polypeptide binding]; other site 444178005183 active site 444178005184 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 444178005185 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 444178005186 active site 444178005187 Phosphopantetheine attachment site; Region: PP-binding; cl09936 444178005188 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 444178005189 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 444178005190 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 444178005191 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 444178005192 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 444178005193 active site 444178005194 catalytic residues [active] 444178005195 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444178005196 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 444178005197 substrate binding site [chemical binding]; other site 444178005198 ATP binding site [chemical binding]; other site 444178005199 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 444178005200 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 444178005201 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 444178005202 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 444178005203 active site 444178005204 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178005205 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 444178005206 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178005207 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 444178005208 substrate binding pocket [chemical binding]; other site 444178005209 membrane-bound complex binding site; other site 444178005210 hinge residues; other site 444178005211 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 444178005212 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 444178005213 FMN binding site [chemical binding]; other site 444178005214 active site 444178005215 catalytic residues [active] 444178005216 substrate binding site [chemical binding]; other site 444178005217 Predicted aspartyl protease [General function prediction only]; Region: COG3577 444178005218 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 444178005219 catalytic motif [active] 444178005220 Catalytic residue [active] 444178005221 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 444178005222 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 444178005223 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 444178005224 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 444178005225 putative dimer interface [polypeptide binding]; other site 444178005226 active site pocket [active] 444178005227 putative cataytic base [active] 444178005228 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 444178005229 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 444178005230 putative DNA binding site [nucleotide binding]; other site 444178005231 putative Zn2+ binding site [ion binding]; other site 444178005232 AsnC family; Region: AsnC_trans_reg; pfam01037 444178005233 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 444178005234 putative uracil binding site [chemical binding]; other site 444178005235 putative active site [active] 444178005236 Staphylococcal nuclease homologues; Region: SNc; smart00318 444178005237 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 444178005238 Catalytic site; other site 444178005239 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 444178005240 Sel1 repeat; Region: Sel1; cl02723 444178005241 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 444178005242 putative catalytic site [active] 444178005243 putative phosphate binding site [ion binding]; other site 444178005244 active site 444178005245 metal binding site A [ion binding]; metal-binding site 444178005246 DNA binding site [nucleotide binding] 444178005247 putative AP binding site [nucleotide binding]; other site 444178005248 putative metal binding site B [ion binding]; other site 444178005249 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 444178005250 putative metal binding site [ion binding]; other site 444178005251 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 444178005252 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 444178005253 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 444178005254 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 444178005255 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 444178005256 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 444178005257 active site 444178005258 HIGH motif; other site 444178005259 KMSK motif region; other site 444178005260 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 444178005261 tRNA binding surface [nucleotide binding]; other site 444178005262 anticodon binding site; other site 444178005263 Sporulation related domain; Region: SPOR; cl10051 444178005264 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 444178005265 ScpA/B protein; Region: ScpA_ScpB; cl00598 444178005266 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 444178005267 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 444178005268 sec-independent translocase; Provisional; Region: PRK00708 444178005269 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 444178005270 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 444178005271 seryl-tRNA synthetase; Provisional; Region: PRK05431 444178005272 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 444178005273 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 bound...; Region: SerRS_core; cd00770 444178005274 dimer interface [polypeptide binding]; other site 444178005275 active site 444178005276 motif 1; other site 444178005277 motif 2; other site 444178005278 motif 3; other site 444178005279 Survival protein SurE; Region: SurE; cl00448 444178005280 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 444178005281 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 444178005282 S-adenosylmethionine binding site [chemical binding]; other site 444178005283 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178005284 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178005285 autolysin; Reviewed; Region: PRK06347 444178005286 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444178005287 Peptidase family M23; Region: Peptidase_M23; pfam01551 444178005288 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 444178005289 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 444178005290 Walker A motif; other site 444178005291 ATP binding site [chemical binding]; other site 444178005292 Walker B motif; other site 444178005293 Preprotein translocase subunit; Region: YajC; cl00806 444178005294 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 444178005295 Protein export membrane protein; Region: SecD_SecF; cl14618 444178005296 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 444178005297 Protein export membrane protein; Region: SecD_SecF; cl14618 444178005298 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 444178005299 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 444178005300 substrate binding pocket [chemical binding]; other site 444178005301 substrate-Mg2+ binding site; other site 444178005302 aspartate-rich region 1; other site 444178005303 aspartate-rich region 2; other site 444178005304 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 444178005305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178005306 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 444178005307 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 444178005308 GDYXXLXY protein; Region: GDYXXLXY; cl02066 444178005309 trigger factor; Provisional; Region: tig; PRK01490 444178005310 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 444178005311 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 444178005312 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 444178005313 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 444178005314 GatB domain; Region: GatB_Yqey; cl11497 444178005315 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 444178005316 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178005317 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 444178005318 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 444178005319 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 444178005320 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444178005321 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178005322 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 444178005323 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 444178005324 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 444178005325 carboxyltransferase (CT) interaction site; other site 444178005326 biotinylation site [posttranslational modification]; other site 444178005327 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 444178005328 trimer interface [polypeptide binding]; other site 444178005329 active site 444178005330 dimer interface [polypeptide binding]; other site 444178005331 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 444178005332 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 444178005333 catalytic residues [active] 444178005334 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 444178005335 Peptidase family M48; Region: Peptidase_M48; cl12018 444178005336 aspartate aminotransferase; Provisional; Region: PRK05764 444178005337 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 444178005338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178005339 homodimer interface [polypeptide binding]; other site 444178005340 catalytic residue [active] 444178005341 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 444178005342 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 444178005343 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 444178005344 AMIN domain; Region: AMIN; pfam11741 444178005345 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 444178005346 active site 444178005347 metal binding site [ion binding]; metal-binding site 444178005348 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 444178005349 Transglycosylase; Region: Transgly; cl07896 444178005350 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178005351 peptide chain release factor 2; Provisional; Region: PRK07342 444178005352 RF-1 domain; Region: RF-1; cl02875 444178005353 RF-1 domain; Region: RF-1; cl02875 444178005354 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178005355 AsmA family; Region: AsmA; pfam05170 444178005356 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 444178005357 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 444178005358 active site 444178005359 HIGH motif; other site 444178005360 dimer interface [polypeptide binding]; other site 444178005361 KMSKS motif; other site 444178005362 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 444178005363 RNA binding surface [nucleotide binding]; other site 444178005364 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 444178005365 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 444178005366 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 444178005367 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 444178005368 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 444178005369 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444178005370 catalytic residue [active] 444178005371 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 444178005372 putative ABC transporter; Region: ycf24; CHL00085 444178005373 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 444178005374 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 444178005375 Walker A/P-loop; other site 444178005376 ATP binding site [chemical binding]; other site 444178005377 Q-loop/lid; other site 444178005378 ABC transporter signature motif; other site 444178005379 Walker B; other site 444178005380 D-loop; other site 444178005381 H-loop/switch region; other site 444178005382 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 444178005383 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 444178005384 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 444178005385 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 444178005386 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444178005387 catalytic residue [active] 444178005388 Domain of unknown function DUF59; Region: DUF59; cl00941 444178005389 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 444178005390 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 444178005391 active site 444178005392 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 444178005393 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 444178005394 helicase 45; Provisional; Region: PTZ00424 444178005395 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 444178005396 ATP binding site [chemical binding]; other site 444178005397 Mg++ binding site [ion binding]; other site 444178005398 motif III; other site 444178005399 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 444178005400 nucleotide binding region [chemical binding]; other site 444178005401 ATP-binding site [chemical binding]; other site 444178005402 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 444178005403 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; cl00207 444178005404 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 444178005405 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 444178005406 S-adenosylmethionine binding site [chemical binding]; other site 444178005407 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 444178005408 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 444178005409 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 444178005410 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 444178005411 HIGH motif; other site 444178005412 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 444178005413 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 444178005414 active site 444178005415 KMSKS motif; other site 444178005416 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 444178005417 tRNA binding surface [nucleotide binding]; other site 444178005418 anticodon binding site; other site 444178005419 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 444178005420 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178005421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178005422 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 444178005423 NAD(P) binding pocket [chemical binding]; other site 444178005424 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 444178005425 putative substrate binding pocket (H-site) [chemical binding]; other site 444178005426 putative N-terminal domain interface [polypeptide binding]; other site 444178005427 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178005428 substrate binding pocket [chemical binding]; other site 444178005429 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 444178005430 Walker A motif; other site 444178005431 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 444178005432 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 444178005433 GTP binding site; other site 444178005434 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 444178005435 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 444178005436 FeS/SAM binding site; other site 444178005437 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 444178005438 Protein of unknown function (DUF971); Region: DUF971; cl01414 444178005439 hypothetical protein; Provisional; Region: PRK06753 444178005440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178005441 fumarate hydratase; Provisional; Region: PRK15389 444178005442 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 444178005443 Fumarase C-terminus; Region: Fumerase_C; cl00795 444178005444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 444178005445 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 444178005446 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178005447 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 444178005448 ArsC family; Region: ArsC; pfam03960 444178005449 catalytic residues [active] 444178005450 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 444178005451 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 444178005452 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 444178005453 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178005454 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 444178005455 thymidylate kinase; Validated; Region: tmk; PRK00698 444178005456 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 444178005457 TMP-binding site; other site 444178005458 ATP-binding site [chemical binding]; other site 444178005459 DNA polymerase III subunit delta'; Validated; Region: PRK09112 444178005460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178005461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178005462 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 444178005463 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 444178005464 active site 444178005465 HIGH motif; other site 444178005466 KMSKS motif; other site 444178005467 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 444178005468 tRNA binding surface [nucleotide binding]; other site 444178005469 anticodon binding site; other site 444178005470 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 444178005471 active site 444178005472 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 444178005473 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 444178005474 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178005475 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 444178005476 Walker A/P-loop; other site 444178005477 ATP binding site [chemical binding]; other site 444178005478 Q-loop/lid; other site 444178005479 ABC transporter signature motif; other site 444178005480 Walker B; other site 444178005481 D-loop; other site 444178005482 H-loop/switch region; other site 444178005483 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 444178005484 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 444178005485 active site 444178005486 EamA-like transporter family; Region: EamA; cl01037 444178005487 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 444178005488 EamA-like transporter family; Region: EamA; cl01037 444178005489 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 444178005490 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178005491 motif I; other site 444178005492 active site 444178005493 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 444178005494 motif II; other site 444178005495 ATP12 chaperone protein; Region: ATP12; cl02228 444178005496 glutamine synthetase; Provisional; Region: glnA; PRK09469 444178005497 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 444178005498 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 444178005499 Nitrogen regulatory protein P-II; Region: P-II; cl00412 444178005500 Nitrogen regulatory protein P-II; Region: P-II; smart00938 444178005501 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 444178005502 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 444178005503 putative substrate binding site [chemical binding]; other site 444178005504 putative ATP binding site [chemical binding]; other site 444178005505 phosphoglycolate phosphatase; Provisional; Region: PRK13222 444178005506 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 444178005507 motif II; other site 444178005508 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 444178005509 tetramer (dimer of dimers) interface [polypeptide binding]; other site 444178005510 active site 444178005511 dimer interface [polypeptide binding]; other site 444178005512 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 444178005513 glutathione reductase; Validated; Region: PRK06116 444178005514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178005515 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 444178005516 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 444178005517 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 444178005518 NAD synthetase; Provisional; Region: PRK13981 444178005519 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 444178005520 multimer interface [polypeptide binding]; other site 444178005521 active site 444178005522 catalytic triad [active] 444178005523 protein interface 1 [polypeptide binding]; other site 444178005524 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 444178005525 homodimer interface [polypeptide binding]; other site 444178005526 NAD binding pocket [chemical binding]; other site 444178005527 ATP binding pocket [chemical binding]; other site 444178005528 Mg binding site [ion binding]; other site 444178005529 active-site loop [active] 444178005530 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 444178005531 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444178005532 active site 444178005533 HIGH motif; other site 444178005534 nucleotide binding site [chemical binding]; other site 444178005535 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 444178005536 active site 444178005537 KMSKS motif; other site 444178005538 malic enzyme; Reviewed; Region: PRK12862 444178005539 Malic enzyme, N-terminal domain; Region: malic; pfam00390 444178005540 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 444178005541 putative NAD(P) binding site [chemical binding]; other site 444178005542 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 444178005543 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 444178005544 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 444178005545 active site 444178005546 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 444178005547 Permease; Region: Permease; cl00510 444178005548 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 444178005549 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 444178005550 Walker A/P-loop; other site 444178005551 ATP binding site [chemical binding]; other site 444178005552 Q-loop/lid; other site 444178005553 ABC transporter signature motif; other site 444178005554 Walker B; other site 444178005555 D-loop; other site 444178005556 H-loop/switch region; other site 444178005557 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 444178005558 mce related protein; Region: MCE; pfam02470 444178005559 Protein of unknown function (DUF330); Region: DUF330; cl01135 444178005560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 444178005561 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 444178005562 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; cl00159 444178005563 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 444178005564 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 444178005565 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 444178005566 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 444178005567 dihydropteroate synthase; Region: DHPS; TIGR01496 444178005568 substrate binding pocket [chemical binding]; other site 444178005569 dimer interface [polypeptide binding]; other site 444178005570 inhibitor binding site; inhibition site 444178005571 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 444178005572 homooctamer interface [polypeptide binding]; other site 444178005573 active site 444178005574 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 444178005575 catalytic center binding site [active] 444178005576 ATP binding site [chemical binding]; other site 444178005577 Predicted membrane protein [Function unknown]; Region: COG3768 444178005578 Domain of unknown function (DUF697); Region: DUF697; cl12064 444178005579 YcjX-like family, DUF463; Region: DUF463; cl01193 444178005580 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 444178005581 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 444178005582 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 444178005583 putative active site [active] 444178005584 heme pocket [chemical binding]; other site 444178005585 PAS fold; Region: PAS_4; pfam08448 444178005586 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 444178005587 dimer interface [polypeptide binding]; other site 444178005588 phosphorylation site [posttranslational modification] 444178005589 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 444178005590 ATP binding site [chemical binding]; other site 444178005591 Mg2+ binding site [ion binding]; other site 444178005592 G-X-G motif; other site 444178005593 Response regulator receiver domain; Region: Response_reg; pfam00072 444178005594 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 444178005595 active site 444178005596 phosphorylation site [posttranslational modification] 444178005597 intermolecular recognition site; other site 444178005598 dimerization interface [polypeptide binding]; other site 444178005599 Predicted flavoproteins [General function prediction only]; Region: COG2081 444178005600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178005601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178005602 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178005603 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 444178005604 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 444178005605 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 444178005606 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 444178005607 active site 444178005608 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 444178005609 TSCPD domain; Region: TSCPD; cl14834 444178005610 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_9; cd04666 444178005611 nudix motif; other site 444178005612 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 444178005613 Ligand Binding Site [chemical binding]; other site 444178005614 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 444178005615 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 444178005616 putative MPT binding site; other site 444178005617 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 444178005618 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 444178005619 DEAD-like helicases superfamily; Region: DEXDc; smart00487 444178005620 ATP binding site [chemical binding]; other site 444178005621 Mg++ binding site [ion binding]; other site 444178005622 motif III; other site 444178005623 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 444178005624 nucleotide binding region [chemical binding]; other site 444178005625 ATP-binding site [chemical binding]; other site 444178005626 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 444178005627 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 444178005628 dimer interface [polypeptide binding]; other site 444178005629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178005630 catalytic residue [active] 444178005631 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 444178005632 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 444178005633 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 444178005634 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 444178005635 active site residue [active] 444178005636 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 444178005637 active site residue [active] 444178005638 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 444178005639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444178005640 Coenzyme A binding pocket [chemical binding]; other site 444178005641 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444178005642 metal binding site [ion binding]; metal-binding site 444178005643 active site 444178005644 I-site; other site 444178005645 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 444178005646 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 444178005647 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 444178005648 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 444178005649 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 444178005650 putative substrate translocation pore; other site 444178005651 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 444178005652 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 444178005653 putative NAD(P) binding site [chemical binding]; other site 444178005654 putative substrate binding site [chemical binding]; other site 444178005655 catalytic Zn binding site [ion binding]; other site 444178005656 structural Zn binding site [ion binding]; other site 444178005657 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 444178005658 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 444178005659 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 444178005660 S-adenosylmethionine binding site [chemical binding]; other site 444178005661 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 444178005662 Membrane transport protein; Region: Mem_trans; cl09117 444178005663 UDP-glucose 4-epimerase; Region: PLN02240 444178005664 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 444178005665 NAD binding site [chemical binding]; other site 444178005666 homodimer interface [polypeptide binding]; other site 444178005667 active site 444178005668 substrate binding site [chemical binding]; other site 444178005669 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 444178005670 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 444178005671 homodimer interface [polypeptide binding]; other site 444178005672 metal binding site [ion binding]; metal-binding site 444178005673 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs'; Region: NTP-PPase_MazG_Cterm; cd11529 444178005674 homodimer interface [polypeptide binding]; other site 444178005675 active site 444178005676 putative chemical substrate binding site [chemical binding]; other site 444178005677 metal binding site [ion binding]; metal-binding site 444178005678 Flavin Reductases; Region: FlaRed; cl00801 444178005679 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 444178005680 putative FMN binding site [chemical binding]; other site 444178005681 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 444178005682 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 444178005683 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 444178005684 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 444178005685 active site 444178005686 dimer interface [polypeptide binding]; other site 444178005687 motif 1; other site 444178005688 motif 2; other site 444178005689 motif 3; other site 444178005690 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 444178005691 anticodon binding site; other site 444178005692 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178005693 Haemolytic domain; Region: Haemolytic; cl00506 444178005694 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 444178005695 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 444178005696 trimerization site [polypeptide binding]; other site 444178005697 active site 444178005698 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 444178005699 homodecamer interface [polypeptide binding]; other site 444178005700 GTP cyclohydrolase I; Provisional; Region: PLN03044 444178005701 active site 444178005702 putative catalytic site residues [active] 444178005703 zinc binding site [ion binding]; other site 444178005704 GTP-CH-I/GFRP interaction surface; other site 444178005705 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 444178005706 hypothetical protein; Provisional; Region: PRK10279 444178005707 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 444178005708 nucleophile elbow; other site 444178005709 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 444178005710 CoA-transferase family III; Region: CoA_transf_3; pfam02515 444178005711 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 444178005712 Helix-turn-helix domains; Region: HTH; cl00088 444178005713 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 444178005714 dimerization interface [polypeptide binding]; other site 444178005715 substrate binding pocket [chemical binding]; other site 444178005716 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 444178005717 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 444178005718 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 444178005719 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 444178005720 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178005721 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444178005722 Helix-turn-helix domains; Region: HTH; cl00088 444178005723 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 444178005724 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 444178005725 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 444178005726 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 444178005727 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 444178005728 active site 444178005729 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 444178005730 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 444178005731 active site 444178005732 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 444178005733 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 444178005734 active site 444178005735 (T/H)XGH motif; other site 444178005736 DNA gyrase subunit A; Validated; Region: PRK05560 444178005737 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 in DNA...; Region: TOP4c; cd00187 444178005738 CAP-like domain; other site 444178005739 active site 444178005740 primary dimer interface [polypeptide binding]; other site 444178005741 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444178005742 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444178005743 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444178005744 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444178005745 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444178005746 MarC family integral membrane protein; Region: MarC; cl00919 444178005747 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178005748 active site 444178005749 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 444178005750 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 444178005751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178005752 DNA-binding site [nucleotide binding]; DNA binding site 444178005753 UTRA domain; Region: UTRA; cl01230 444178005754 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 444178005755 dimer interface [polypeptide binding]; other site 444178005756 ssDNA binding site [nucleotide binding]; other site 444178005757 tetramer (dimer of dimers) interface [polypeptide binding]; other site 444178005758 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 444178005759 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 444178005760 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 444178005761 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 444178005762 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 444178005763 IHF dimer interface [polypeptide binding]; other site 444178005764 IHF - DNA interface [nucleotide binding]; other site 444178005765 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 444178005766 Found in ATP-dependent protease La (LON); Region: LON; smart00464 444178005767 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 444178005768 Walker A motif; other site 444178005769 ATP binding site [chemical binding]; other site 444178005770 Walker B motif; other site 444178005771 arginine finger; other site 444178005772 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 444178005773 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 444178005774 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 444178005775 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 444178005776 Walker A motif; other site 444178005777 ATP binding site [chemical binding]; other site 444178005778 Walker B motif; other site 444178005779 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 444178005780 Clp protease; Region: CLP_protease; pfam00574 444178005781 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 444178005782 oligomer interface [polypeptide binding]; other site 444178005783 active site residues [active] 444178005784 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 444178005785 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 444178005786 HflX GTPase family; Region: HflX; cd01878 444178005787 G1 box; other site 444178005788 GTP/Mg2+ binding site [chemical binding]; other site 444178005789 Switch I region; other site 444178005790 G2 box; other site 444178005791 G3 box; other site 444178005792 Switch II region; other site 444178005793 G4 box; other site 444178005794 G5 box; other site 444178005795 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 444178005796 Sm1 motif; other site 444178005797 intra - hexamer interaction site; other site 444178005798 inter - hexamer interaction site [polypeptide binding]; other site 444178005799 nucleotide binding pocket [chemical binding]; other site 444178005800 Sm2 motif; other site 444178005801 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 444178005802 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 444178005803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178005804 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; cl15357 444178005805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178005806 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; cl15357 444178005807 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 444178005808 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 444178005809 active site 444178005810 phosphorylation site [posttranslational modification] 444178005811 intermolecular recognition site; other site 444178005812 dimerization interface [polypeptide binding]; other site 444178005813 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 444178005814 Walker A motif; other site 444178005815 ATP binding site [chemical binding]; other site 444178005816 Walker B motif; other site 444178005817 arginine finger; other site 444178005818 Helix-turn-helix domains; Region: HTH; cl00088 444178005819 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 444178005820 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 444178005821 dimerization interface [polypeptide binding]; other site 444178005822 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 444178005823 putative active site [active] 444178005824 heme pocket [chemical binding]; other site 444178005825 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 444178005826 dimer interface [polypeptide binding]; other site 444178005827 phosphorylation site [posttranslational modification] 444178005828 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 444178005829 ATP binding site [chemical binding]; other site 444178005830 Mg2+ binding site [ion binding]; other site 444178005831 G-X-G motif; other site 444178005832 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 444178005833 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 444178005834 active site 444178005835 phosphorylation site [posttranslational modification] 444178005836 intermolecular recognition site; other site 444178005837 dimerization interface [polypeptide binding]; other site 444178005838 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 444178005839 Walker A motif; other site 444178005840 ATP binding site [chemical binding]; other site 444178005841 Walker B motif; other site 444178005842 arginine finger; other site 444178005843 Helix-turn-helix domains; Region: HTH; cl00088 444178005844 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 444178005845 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 444178005846 dimer interface [polypeptide binding]; other site 444178005847 phosphorylation site [posttranslational modification] 444178005848 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 444178005849 ATP binding site [chemical binding]; other site 444178005850 Mg2+ binding site [ion binding]; other site 444178005851 G-X-G motif; other site 444178005852 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 444178005853 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 444178005854 FMN binding site [chemical binding]; other site 444178005855 active site 444178005856 catalytic residues [active] 444178005857 substrate binding site [chemical binding]; other site 444178005858 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 444178005859 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 444178005860 substrate binding site; other site 444178005861 dimer interface; other site 444178005862 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 444178005863 homotrimer interaction site [polypeptide binding]; other site 444178005864 zinc binding site [ion binding]; other site 444178005865 CDP-binding sites; other site 444178005866 Competence-damaged protein; Region: CinA; cl00666 444178005867 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 444178005868 classical (c) SDRs; Region: SDR_c; cd05233 444178005869 NAD(P) binding site [chemical binding]; other site 444178005870 active site 444178005871 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 444178005872 putative coenzyme Q binding site [chemical binding]; other site 444178005873 lipoyl synthase; Provisional; Region: PRK05481 444178005874 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 444178005875 FeS/SAM binding site; other site 444178005876 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 444178005877 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 444178005878 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 444178005879 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178005880 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 444178005881 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 444178005882 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 444178005883 E3 interaction surface; other site 444178005884 lipoyl attachment site [posttranslational modification]; other site 444178005885 e3 binding domain; Region: E3_binding; pfam02817 444178005886 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 444178005887 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 444178005888 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 444178005889 E3 interaction surface; other site 444178005890 lipoyl attachment site [posttranslational modification]; other site 444178005891 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 444178005892 alpha subunit interface [polypeptide binding]; other site 444178005893 TPP binding site [chemical binding]; other site 444178005894 heterodimer interface [polypeptide binding]; other site 444178005895 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 444178005896 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 444178005897 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 444178005898 tetramer interface [polypeptide binding]; other site 444178005899 TPP-binding site [chemical binding]; other site 444178005900 heterodimer interface [polypeptide binding]; other site 444178005901 phosphorylation loop region [posttranslational modification] 444178005902 Septum formation initiator; Region: DivIC; cl11433 444178005903 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 444178005904 S-adenosylmethionine binding site [chemical binding]; other site 444178005905 enolase; Provisional; Region: eno; PRK00077 444178005906 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 444178005907 dimer interface [polypeptide binding]; other site 444178005908 metal binding site [ion binding]; metal-binding site 444178005909 substrate binding pocket [chemical binding]; other site 444178005910 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 444178005911 NeuB family; Region: NeuB; cl00496 444178005912 CTP synthetase; Validated; Region: pyrG; PRK05380 444178005913 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 444178005914 Catalytic site [active] 444178005915 active site 444178005916 UTP binding site [chemical binding]; other site 444178005917 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 444178005918 active site 444178005919 putative oxyanion hole; other site 444178005920 catalytic triad [active] 444178005921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 444178005922 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178005923 Preprotein translocase SecG subunit; Region: SecG; cl09123 444178005924 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 444178005925 substrate binding site [chemical binding]; other site 444178005926 dimer interface [polypeptide binding]; other site 444178005927 catalytic triad [active] 444178005928 SurA N-terminal domain; Region: SurA_N_3; cl07813 444178005929 PPIC-type PPIASE domain; Region: Rotamase; cl08278 444178005930 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 444178005931 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 444178005932 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 444178005933 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 444178005934 active site 444178005935 ribulose/triose binding site [chemical binding]; other site 444178005936 phosphate binding site [ion binding]; other site 444178005937 substrate (anthranilate) binding pocket [chemical binding]; other site 444178005938 product (indole) binding pocket [chemical binding]; other site 444178005939 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 444178005940 trimer interface [polypeptide binding]; other site 444178005941 dimer interface [polypeptide binding]; other site 444178005942 putative active site [active] 444178005943 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 444178005944 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 444178005945 dimer interface [polypeptide binding]; other site 444178005946 putative functional site; other site 444178005947 putative MPT binding site; other site 444178005948 LexA repressor; Validated; Region: PRK00215 444178005949 Helix-turn-helix domains; Region: HTH; cl00088 444178005950 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 444178005951 Catalytic site [active] 444178005952 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 444178005953 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444178005954 active site 444178005955 HIGH motif; other site 444178005956 nucleotide binding site [chemical binding]; other site 444178005957 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 444178005958 active site 444178005959 KMSKS motif; other site 444178005960 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 444178005961 dimer interface [polypeptide binding]; other site 444178005962 Citrate synthase; Region: Citrate_synt; pfam00285 444178005963 active site 444178005964 citrylCoA binding site [chemical binding]; other site 444178005965 NADH binding [chemical binding]; other site 444178005966 cationic pore residues; other site 444178005967 oxalacetate/citrate binding site [chemical binding]; other site 444178005968 coenzyme A binding site [chemical binding]; other site 444178005969 catalytic triad [active] 444178005970 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 444178005971 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 444178005972 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 444178005973 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 444178005974 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 444178005975 active site 444178005976 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 444178005977 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 444178005978 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 444178005979 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 444178005980 trimer interface [polypeptide binding]; other site 444178005981 active site 444178005982 UDP-GlcNAc binding site [chemical binding]; other site 444178005983 lipid binding site [chemical binding]; lipid-binding site 444178005984 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 444178005985 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 444178005986 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 444178005987 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 444178005988 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 444178005989 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 444178005990 Surface antigen; Region: Bac_surface_Ag; cl03097 444178005991 RIP metalloprotease RseP; Region: TIGR00054 444178005992 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 444178005993 active site 444178005994 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 444178005995 protein binding site [polypeptide binding]; other site 444178005996 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 444178005997 putative substrate binding region [chemical binding]; other site 444178005998 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 444178005999 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 444178006000 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 444178006001 catalytic residue [active] 444178006002 putative FPP diphosphate binding site; other site 444178006003 putative FPP binding hydrophobic cleft; other site 444178006004 dimer interface [polypeptide binding]; other site 444178006005 putative IPP diphosphate binding site; other site 444178006006 ribosome recycling factor; Reviewed; Region: frr; PRK00083 444178006007 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 round of...; Region: RRF; cd00520 444178006008 hinge region; other site 444178006009 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 444178006010 putative nucleotide binding site [chemical binding]; other site 444178006011 uridine monophosphate binding site [chemical binding]; other site 444178006012 homohexameric interface [polypeptide binding]; other site 444178006013 elongation factor Ts; Provisional; Region: tsf; PRK09377 444178006014 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 444178006015 Elongation factor TS; Region: EF_TS; pfam00889 444178006016 Elongation factor TS; Region: EF_TS; pfam00889 444178006017 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 444178006018 rRNA interaction site [nucleotide binding]; other site 444178006019 S8 interaction site; other site 444178006020 putative laminin-1 binding site; other site 444178006021 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 444178006022 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 444178006023 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 444178006024 homotrimer interaction site [polypeptide binding]; other site 444178006025 putative active site [active] 444178006026 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 444178006027 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 444178006028 putative active site [active] 444178006029 catalytic site [active] 444178006030 putative metal binding site [ion binding]; other site 444178006031 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178006032 Protein of unknown function, DUF482; Region: DUF482; pfam04339 444178006033 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 444178006034 HIT family signature motif; other site 444178006035 catalytic residue [active] 444178006036 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 444178006037 Clp amino terminal domain; Region: Clp_N; pfam02861 444178006038 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 444178006039 Walker A motif; other site 444178006040 ATP binding site [chemical binding]; other site 444178006041 Walker B motif; other site 444178006042 arginine finger; other site 444178006043 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 444178006044 Walker A motif; other site 444178006045 ATP binding site [chemical binding]; other site 444178006046 Walker B motif; other site 444178006047 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 444178006048 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 444178006049 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 444178006050 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178006051 Sporulation related domain; Region: SPOR; cl10051 444178006052 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 444178006053 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178006054 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 444178006055 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 444178006056 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 444178006057 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 444178006058 putative active site [active] 444178006059 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 444178006060 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 444178006061 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 444178006062 DNA binding residues [nucleotide binding] 444178006063 putative dimer interface [polypeptide binding]; other site 444178006064 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178006065 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 444178006066 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 444178006067 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 444178006068 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 444178006069 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 444178006070 non-specific DNA binding site [nucleotide binding]; other site 444178006071 salt bridge; other site 444178006072 sequence-specific DNA binding site [nucleotide binding]; other site 444178006073 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 444178006074 Domain of unknown function (DUF955); Region: DUF955; cl01076 444178006075 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 444178006076 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 444178006077 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444178006078 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178006079 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 444178006080 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 444178006081 carboxyltransferase (CT) interaction site; other site 444178006082 biotinylation site [posttranslational modification]; other site 444178006083 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178006084 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 444178006085 NMT1-like family; Region: NMT1_2; cl15260 444178006086 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 444178006087 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 444178006088 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 444178006089 intracellular protease, PfpI family; Region: PfpI; TIGR01382 444178006090 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 444178006091 conserved cys residue [active] 444178006092 Ribbon-helix-helix domain; Region: RHH_4; cl01775 444178006093 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 444178006094 alkaline phosphatase; Provisional; Region: PRK10518 444178006095 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 444178006096 dimer interface [polypeptide binding]; other site 444178006097 active site 444178006098 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 444178006099 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 formation of...; Region: AlaRS_core; cd00673 444178006100 motif 1; other site 444178006101 active site 444178006102 motif 2; other site 444178006103 motif 3; other site 444178006104 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 444178006105 recombinase A; Provisional; Region: recA; PRK09354 444178006106 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 444178006107 hexamer interface [polypeptide binding]; other site 444178006108 Walker A motif; other site 444178006109 ATP binding site [chemical binding]; other site 444178006110 Walker B motif; other site 444178006111 putative outer membrane lipoprotein; Provisional; Region: PRK10510 444178006112 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444178006113 ligand binding site [chemical binding]; other site 444178006114 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 444178006115 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444178006116 catalytic residue [active] 444178006117 recombination factor protein RarA; Reviewed; Region: PRK13342 444178006118 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 444178006119 Walker A motif; other site 444178006120 ATP binding site [chemical binding]; other site 444178006121 Walker B motif; other site 444178006122 arginine finger; other site 444178006123 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 444178006124 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 444178006125 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 444178006126 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 444178006127 protein binding site [polypeptide binding]; other site 444178006128 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 444178006129 protein binding site [polypeptide binding]; other site 444178006130 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 444178006131 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 444178006132 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 444178006133 alphaNTD - beta interaction site [polypeptide binding]; other site 444178006134 alphaNTD homodimer interface [polypeptide binding]; other site 444178006135 alphaNTD - beta' interaction site [polypeptide binding]; other site 444178006136 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 444178006137 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 444178006138 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 444178006139 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 444178006140 adenylate kinase; Reviewed; Region: adk; PRK00279 444178006141 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 444178006142 AMP-binding site [chemical binding]; other site 444178006143 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 444178006144 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 444178006145 SecY translocase; Region: SecY; pfam00344 444178006146 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 444178006147 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 444178006148 23S rRNA binding site [nucleotide binding]; other site 444178006149 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 444178006150 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 444178006151 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 444178006152 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 444178006153 5S rRNA interface [nucleotide binding]; other site 444178006154 23S rRNA interface [nucleotide binding]; other site 444178006155 L5 interface [polypeptide binding]; other site 444178006156 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 444178006157 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 444178006158 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 444178006159 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 444178006160 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 444178006161 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 444178006162 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 444178006163 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 444178006164 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 444178006165 KOW motif; Region: KOW; cl00354 444178006166 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 444178006167 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 444178006168 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 444178006169 23S rRNA interface [nucleotide binding]; other site 444178006170 putative translocon interaction site; other site 444178006171 signal recognition particle (SRP54) interaction site; other site 444178006172 L23 interface [polypeptide binding]; other site 444178006173 trigger factor interaction site; other site 444178006174 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 444178006175 23S rRNA interface [nucleotide binding]; other site 444178006176 5S rRNA interface [nucleotide binding]; other site 444178006177 putative antibiotic binding site [chemical binding]; other site 444178006178 L25 interface [polypeptide binding]; other site 444178006179 L27 interface [polypeptide binding]; other site 444178006180 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 444178006181 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 444178006182 G-X-X-G motif; other site 444178006183 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 444178006184 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 444178006185 putative translocon binding site; other site 444178006186 protein-rRNA interface [nucleotide binding]; other site 444178006187 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 444178006188 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 444178006189 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 444178006190 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 444178006191 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 444178006192 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 444178006193 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 444178006194 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 444178006195 elongation factor Tu; Reviewed; Region: PRK00049 444178006196 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 444178006197 G1 box; other site 444178006198 GEF interaction site [polypeptide binding]; other site 444178006199 GTP/Mg2+ binding site [chemical binding]; other site 444178006200 Switch I region; other site 444178006201 G2 box; other site 444178006202 G3 box; other site 444178006203 Switch II region; other site 444178006204 G4 box; other site 444178006205 G5 box; other site 444178006206 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 444178006207 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 444178006208 Antibiotic Binding Site [chemical binding]; other site 444178006209 elongation factor G; Reviewed; Region: PRK00007 444178006210 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 444178006211 G1 box; other site 444178006212 putative GEF interaction site [polypeptide binding]; other site 444178006213 GTP/Mg2+ binding site [chemical binding]; other site 444178006214 Switch I region; other site 444178006215 G2 box; other site 444178006216 G3 box; other site 444178006217 Switch II region; other site 444178006218 G4 box; other site 444178006219 G5 box; other site 444178006220 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 444178006221 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 444178006222 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 444178006223 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 444178006224 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 444178006225 S17 interaction site [polypeptide binding]; other site 444178006226 S8 interaction site; other site 444178006227 16S rRNA interaction site [nucleotide binding]; other site 444178006228 streptomycin interaction site [chemical binding]; other site 444178006229 23S rRNA interaction site [nucleotide binding]; other site 444178006230 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 444178006231 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 444178006232 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 444178006233 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 444178006234 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 444178006235 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 444178006236 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 444178006237 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 444178006238 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 444178006239 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 444178006240 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 444178006241 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 444178006242 DNA binding site [nucleotide binding] 444178006243 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 444178006244 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; cl04593 444178006245 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 444178006246 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 444178006247 RPB11 interaction site [polypeptide binding]; other site 444178006248 RPB12 interaction site [polypeptide binding]; other site 444178006249 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 444178006250 RPB1 interaction site [polypeptide binding]; other site 444178006251 RPB11 interaction site [polypeptide binding]; other site 444178006252 RPB10 interaction site [polypeptide binding]; other site 444178006253 RPB3 interaction site [polypeptide binding]; other site 444178006254 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 444178006255 L11 interface [polypeptide binding]; other site 444178006256 putative EF-Tu interaction site [polypeptide binding]; other site 444178006257 putative EF-G interaction site [polypeptide binding]; other site 444178006258 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 444178006259 23S rRNA interface [nucleotide binding]; other site 444178006260 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 444178006261 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 444178006262 mRNA/rRNA interface [nucleotide binding]; other site 444178006263 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 444178006264 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 444178006265 23S rRNA interface [nucleotide binding]; other site 444178006266 L7/L12 interface [polypeptide binding]; other site 444178006267 putative thiostrepton binding site; other site 444178006268 L25 interface [polypeptide binding]; other site 444178006269 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 444178006270 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 444178006271 putative homodimer interface [polypeptide binding]; other site 444178006272 KOW motif; Region: KOW; cl00354 444178006273 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 444178006274 elongation factor Tu; Reviewed; Region: PRK00049 444178006275 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 444178006276 G1 box; other site 444178006277 GEF interaction site [polypeptide binding]; other site 444178006278 GTP/Mg2+ binding site [chemical binding]; other site 444178006279 Switch I region; other site 444178006280 G2 box; other site 444178006281 G3 box; other site 444178006282 Switch II region; other site 444178006283 G4 box; other site 444178006284 G5 box; other site 444178006285 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 444178006286 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 444178006287 Antibiotic Binding Site [chemical binding]; other site 444178006288 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 444178006289 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 444178006290 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 444178006291 FOG: CBS domain [General function prediction only]; Region: COG0517 444178006292 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_10; cd04623 444178006293 Rhomboid family; Region: Rhomboid; cl11446 444178006294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 444178006295 PAS domain; Region: PAS_5; pfam07310 444178006296 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 444178006297 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 444178006298 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 444178006299 trimer interface [polypeptide binding]; other site 444178006300 putative metal binding site [ion binding]; other site 444178006301 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 444178006302 serine acetyltransferase; Provisional; Region: cysE; PRK11132 444178006303 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 444178006304 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 444178006305 trimer interface [polypeptide binding]; other site 444178006306 active site 444178006307 substrate binding site [chemical binding]; other site 444178006308 CoA binding site [chemical binding]; other site 444178006309 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; cl12031 444178006310 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 444178006311 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 444178006312 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 protein; Region: CSP_CDS; cd04458 444178006313 DNA-binding site [nucleotide binding]; DNA binding site 444178006314 RNA-binding motif; other site 444178006315 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 protein; Region: CSP_CDS; cd04458 444178006316 DNA-binding site [nucleotide binding]; DNA binding site 444178006317 RNA-binding motif; other site 444178006318 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178006319 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 444178006320 dimer interface [polypeptide binding]; other site 444178006321 active site 444178006322 metal binding site [ion binding]; metal-binding site 444178006323 glutathione binding site [chemical binding]; other site 444178006324 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 444178006325 DHH family; Region: DHH; pfam01368 444178006326 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 444178006327 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 444178006328 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178006329 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178006330 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 444178006331 putative active site [active] 444178006332 homoserine dehydrogenase; Provisional; Region: PRK06349 444178006333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178006334 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 444178006335 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 444178006336 aminotransferase; Validated; Region: PRK09148 444178006337 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 444178006338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178006339 homodimer interface [polypeptide binding]; other site 444178006340 catalytic residue [active] 444178006341 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 444178006342 Sugar fermentation stimulation protein; Region: SfsA; cl00647 444178006343 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 444178006344 active site 444178006345 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 444178006346 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 444178006347 MPN+ (JAMM) motif; other site 444178006348 Zinc-binding site [ion binding]; other site 444178006349 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178006350 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 444178006351 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; cl16911 444178006352 precorrin-3B synthase; Region: CobG; TIGR02435 444178006353 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 444178006354 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 444178006355 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 444178006356 Precorrin-8X methylmutase; Region: CbiC; pfam02570 444178006357 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 444178006358 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 444178006359 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 444178006360 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 444178006361 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 444178006362 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 444178006363 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 444178006364 Flavin Reductases; Region: FlaRed; cl00801 444178006365 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 444178006366 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 444178006367 ligand binding site [chemical binding]; other site 444178006368 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 444178006369 CobD/Cbib protein; Region: CobD_Cbib; cl00561 444178006370 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 444178006371 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 444178006372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178006373 homodimer interface [polypeptide binding]; other site 444178006374 catalytic residue [active] 444178006375 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 444178006376 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 444178006377 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 444178006378 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 444178006379 CbiD; Region: CbiD; cl00828 444178006380 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 444178006381 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 444178006382 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 444178006383 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 444178006384 tellurium resistance terB-like protein; Region: terB_like; cd07177 444178006385 metal binding site [ion binding]; metal-binding site 444178006386 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 444178006387 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 444178006388 EamA-like transporter family; Region: EamA; cl01037 444178006389 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 444178006390 homodimer interface [polypeptide binding]; other site 444178006391 Walker A motif; other site 444178006392 ATP binding site [chemical binding]; other site 444178006393 hydroxycobalamin binding site [chemical binding]; other site 444178006394 Walker B motif; other site 444178006395 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 444178006396 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 444178006397 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 444178006398 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 444178006399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006400 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 444178006401 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 444178006402 homotrimer interface [polypeptide binding]; other site 444178006403 Walker A motif; other site 444178006404 GTP binding site [chemical binding]; other site 444178006405 Walker B motif; other site 444178006406 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 444178006407 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 444178006408 cobyric acid synthase; Provisional; Region: PRK00784 444178006409 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006410 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 444178006411 catalytic triad [active] 444178006412 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 444178006413 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 444178006414 substrate binding pocket [chemical binding]; other site 444178006415 FAD binding site [chemical binding]; other site 444178006416 catalytic base [active] 444178006417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178006418 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 444178006419 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444178006420 Helix-turn-helix domains; Region: HTH; cl00088 444178006421 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178006422 dimerization interface [polypeptide binding]; other site 444178006423 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 444178006424 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 444178006425 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 444178006426 Protein export membrane protein; Region: SecD_SecF; cl14618 444178006427 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 444178006428 Protein export membrane protein; Region: SecD_SecF; cl14618 444178006429 putative cation:proton antiport protein; Provisional; Region: PRK10669 444178006430 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 444178006431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178006432 Predicted integral membrane protein [Function unknown]; Region: COG0392 444178006433 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 444178006434 sulfate transport protein; Provisional; Region: cysT; CHL00187 444178006435 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 444178006436 dimer interface [polypeptide binding]; other site 444178006437 conserved gate region; other site 444178006438 putative PBP binding loops; other site 444178006439 ABC-ATPase subunit interface; other site 444178006440 sulfate transport protein; Provisional; Region: cysT; CHL00187 444178006441 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 444178006442 dimer interface [polypeptide binding]; other site 444178006443 conserved gate region; other site 444178006444 putative PBP binding loops; other site 444178006445 ABC-ATPase subunit interface; other site 444178006446 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178006447 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 444178006448 Integral membrane protein TerC family; Region: TerC; cl10468 444178006449 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 444178006450 Transporter associated domain; Region: CorC_HlyC; cl08393 444178006451 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 444178006452 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 444178006453 EF-hand domain pair; Region: EF_hand_5; pfam13499 444178006454 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 444178006455 short chain dehydrogenase; Provisional; Region: PRK06198 444178006456 classical (c) SDRs; Region: SDR_c; cd05233 444178006457 NAD(P) binding site [chemical binding]; other site 444178006458 active site 444178006459 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 444178006460 TM-ABC transporter signature motif; other site 444178006461 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178006462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178006463 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 444178006464 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 444178006465 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 444178006466 Walker A/P-loop; other site 444178006467 ATP binding site [chemical binding]; other site 444178006468 Q-loop/lid; other site 444178006469 ABC transporter signature motif; other site 444178006470 Walker B; other site 444178006471 D-loop; other site 444178006472 H-loop/switch region; other site 444178006473 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 444178006474 ABC-ATPase subunit interface; other site 444178006475 dimer interface [polypeptide binding]; other site 444178006476 putative PBP binding regions; other site 444178006477 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 444178006478 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 444178006479 intersubunit interface [polypeptide binding]; other site 444178006480 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 444178006481 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444178006482 N-terminal plug; other site 444178006483 ligand-binding site [chemical binding]; other site 444178006484 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 444178006485 ABC-2 type transporter; Region: ABC2_membrane; cl11417 444178006486 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178006487 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178006488 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 444178006489 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 444178006490 alpha-gamma subunit interface [polypeptide binding]; other site 444178006491 beta-gamma subunit interface [polypeptide binding]; other site 444178006492 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 444178006493 alpha-beta subunit interface [polypeptide binding]; other site 444178006494 urease subunit alpha; Reviewed; Region: ureC; PRK13309 444178006495 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 444178006496 subunit interactions [polypeptide binding]; other site 444178006497 active site 444178006498 flap region; other site 444178006499 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 444178006500 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 444178006501 dimer interface [polypeptide binding]; other site 444178006502 catalytic residues [active] 444178006503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006504 UreD urease accessory protein; Region: UreD; cl00530 444178006505 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 444178006506 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 444178006507 Cobalt transport protein; Region: CbiQ; cl00463 444178006508 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 444178006509 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 444178006510 Walker A/P-loop; other site 444178006511 ATP binding site [chemical binding]; other site 444178006512 Q-loop/lid; other site 444178006513 ABC transporter signature motif; other site 444178006514 Walker B; other site 444178006515 D-loop; other site 444178006516 H-loop/switch region; other site 444178006517 CrcB-like protein; Region: CRCB; cl09114 444178006518 Domain of unknown function DUF302; Region: DUF302; cl01364 444178006519 CrcB-like protein; Region: CRCB; cl09114 444178006520 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 444178006521 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178006522 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 444178006523 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 444178006524 BA14K-like protein; Region: BA14K; pfam07886 444178006525 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 444178006526 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 444178006527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178006528 homodimer interface [polypeptide binding]; other site 444178006529 catalytic residue [active] 444178006530 ketol-acid reductoisomerase; Provisional; Region: PRK05479 444178006531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178006532 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 444178006533 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444178006534 Helix-turn-helix domains; Region: HTH; cl00088 444178006535 K+ potassium transporter; Region: K_trans; cl15781 444178006536 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 444178006537 active site 444178006538 hydrophilic channel; other site 444178006539 dimerization interface [polypeptide binding]; other site 444178006540 catalytic residues [active] 444178006541 active site lid [active] 444178006542 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 444178006543 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006544 Family description; Region: UvrD_C_2; cl15862 444178006545 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 444178006546 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 444178006547 putative valine binding site [chemical binding]; other site 444178006548 dimer interface [polypeptide binding]; other site 444178006549 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 444178006550 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 444178006551 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 444178006552 PYR/PP interface [polypeptide binding]; other site 444178006553 dimer interface [polypeptide binding]; other site 444178006554 TPP binding site [chemical binding]; other site 444178006555 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 444178006556 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 444178006557 TPP-binding site [chemical binding]; other site 444178006558 dimer interface [polypeptide binding]; other site 444178006559 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 444178006560 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006561 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 444178006562 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178006563 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 444178006564 motif II; other site 444178006565 HI0933-like protein; Region: HI0933_like; pfam03486 444178006566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178006567 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 444178006568 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 444178006569 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 444178006570 protein binding site [polypeptide binding]; other site 444178006571 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 444178006572 protein binding site [polypeptide binding]; other site 444178006573 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 444178006574 FtsH protease regulator HflC; Provisional; Region: PRK11029 444178006575 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 444178006576 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 444178006577 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 444178006578 HflK protein; Region: hflK; TIGR01933 444178006579 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 444178006580 folate binding site [chemical binding]; other site 444178006581 NADP+ binding site [chemical binding]; other site 444178006582 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 444178006583 dimerization interface [polypeptide binding]; other site 444178006584 active site 444178006585 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 444178006586 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 444178006587 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 444178006588 putative substrate translocation pore; other site 444178006589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444178006590 Helix-turn-helix domains; Region: HTH; cl00088 444178006591 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 444178006592 Stringent starvation protein B; Region: SspB; cl01120 444178006593 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 444178006594 Ribbon-helix-helix domain; Region: RHH_4; cl01775 444178006595 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 444178006596 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 444178006597 AsmA-like C-terminal region; Region: AsmA_2; cl15864 444178006598 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 444178006599 FAD binding domain; Region: FAD_binding_4; pfam01565 444178006600 Domain of unknown function (DUF336); Region: DUF336; cl01249 444178006601 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 444178006602 active site 444178006603 ATP binding site [chemical binding]; other site 444178006604 acetate-CoA ligase; Region: PLN02654 444178006605 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 444178006606 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006607 Family description; Region: UvrD_C_2; cl15862 444178006608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 444178006609 CreA protein; Region: CreA; pfam05981 444178006610 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 444178006611 Cu(I) binding site [ion binding]; other site 444178006612 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 444178006613 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 444178006614 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 444178006615 active site 444178006616 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 444178006617 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 444178006618 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 444178006619 nucleotide binding pocket [chemical binding]; other site 444178006620 K-X-D-G motif; other site 444178006621 catalytic site [active] 444178006622 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 444178006623 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 444178006624 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 444178006625 Dimer interface [polypeptide binding]; other site 444178006626 BRCT sequence motif; other site 444178006627 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 444178006628 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 444178006629 Walker A/P-loop; other site 444178006630 ATP binding site [chemical binding]; other site 444178006631 Q-loop/lid; other site 444178006632 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 444178006633 ABC transporter signature motif; other site 444178006634 Walker B; other site 444178006635 D-loop; other site 444178006636 H-loop/switch region; other site 444178006637 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 444178006638 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 444178006639 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 444178006640 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178006641 cell division protein FtsZ; Validated; Region: PRK09330 444178006642 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 444178006643 nucleotide binding site [chemical binding]; other site 444178006644 SulA interaction site; other site 444178006645 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 444178006646 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 444178006647 Cell division protein FtsA; Region: FtsA; cl11496 444178006648 Cell division protein FtsA; Region: FtsA; cl11496 444178006649 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 444178006650 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 444178006651 Cell division protein FtsQ; Region: FtsQ; pfam03799 444178006652 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 444178006653 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 444178006654 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178006655 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 444178006656 FAD binding domain; Region: FAD_binding_4; pfam01565 444178006657 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 444178006658 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 444178006659 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 444178006660 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444178006661 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444178006662 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 444178006663 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 444178006664 active site 444178006665 homodimer interface [polypeptide binding]; other site 444178006666 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 444178006667 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 444178006668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178006669 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444178006670 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 444178006671 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 444178006672 Mg++ binding site [ion binding]; other site 444178006673 putative catalytic motif [active] 444178006674 putative substrate binding site [chemical binding]; other site 444178006675 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 444178006676 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 444178006677 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444178006678 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444178006679 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 444178006680 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 444178006681 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444178006682 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444178006683 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 444178006684 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 444178006685 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178006686 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 444178006687 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 444178006688 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; cl16911 444178006689 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 444178006690 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 444178006691 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 444178006692 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444178006693 catalytic residue [active] 444178006694 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 444178006695 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 444178006696 amidase catalytic site [active] 444178006697 Zn binding residues [ion binding]; other site 444178006698 substrate binding site [chemical binding]; other site 444178006699 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 444178006700 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 444178006701 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 444178006702 putative metal binding site [ion binding]; other site 444178006703 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 444178006704 HSP70 interaction site [polypeptide binding]; other site 444178006705 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 444178006706 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 444178006707 active site 444178006708 Transglycosylase SLT domain; Region: SLT_2; pfam13406 444178006709 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 444178006710 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 444178006711 Membrane transport protein; Region: Mem_trans; cl09117 444178006712 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 444178006713 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 444178006714 FAD binding site [chemical binding]; other site 444178006715 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 444178006716 dimerization interface [polypeptide binding]; other site 444178006717 putative DNA binding site [nucleotide binding]; other site 444178006718 putative Zn2+ binding site [ion binding]; other site 444178006719 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 444178006720 S-adenosylmethionine binding site [chemical binding]; other site 444178006721 Uncharacterized conserved protein (DUF2293); Region: DUF2293; cl02373 444178006722 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 444178006723 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 444178006724 S-adenosylmethionine binding site [chemical binding]; other site 444178006725 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 444178006726 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006727 Walker A/P-loop; other site 444178006728 ATP binding site [chemical binding]; other site 444178006729 Q-loop/lid; other site 444178006730 ABC transporter signature motif; other site 444178006731 Walker B; other site 444178006732 D-loop; other site 444178006733 H-loop/switch region; other site 444178006734 ABC transporter; Region: ABC_tran_2; pfam12848 444178006735 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 444178006736 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 444178006737 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; cl12031 444178006738 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; cl12031 444178006739 Cupin domain; Region: Cupin_2; cl09118 444178006740 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 444178006741 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 444178006742 [2Fe-2S] cluster binding site [ion binding]; other site 444178006743 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 444178006744 putative alpha subunit interface [polypeptide binding]; other site 444178006745 putative active site [active] 444178006746 putative substrate binding site [chemical binding]; other site 444178006747 Fe binding site [ion binding]; other site 444178006748 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 444178006749 Isochorismatase family; Region: Isochorismatase; pfam00857 444178006750 catalytic triad [active] 444178006751 metal binding site [ion binding]; metal-binding site 444178006752 conserved cis-peptide bond; other site 444178006753 Integral membrane protein TerC family; Region: TerC; cl10468 444178006754 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 444178006755 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 444178006756 active site 444178006757 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 444178006758 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 444178006759 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 444178006760 DNA binding site [nucleotide binding] 444178006761 Int/Topo IB signature motif; other site 444178006762 active site 444178006763 catalytic residues [active] 444178006764 Protein of unknown function (DUF541); Region: SIMPL; cl01077 444178006765 Flagellin N-methylase; Region: FliB; cl00497 444178006766 Transcriptional activator HlyU; Region: HlyU; cl02273 444178006767 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 444178006768 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 444178006769 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 444178006770 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 444178006771 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444178006772 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 444178006773 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 444178006774 DNA binding residues [nucleotide binding] 444178006775 DNA primase; Validated; Region: dnaG; PRK05667 444178006776 CHC2 zinc finger; Region: zf-CHC2; cl15369 444178006777 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 444178006778 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 444178006779 active site 444178006780 metal binding site [ion binding]; metal-binding site 444178006781 interdomain interaction site; other site 444178006782 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 444178006783 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 444178006784 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 444178006785 PhoU domain; Region: PhoU; pfam01895 444178006786 PhoU domain; Region: PhoU; pfam01895 444178006787 GatB domain; Region: GatB_Yqey; cl11497 444178006788 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 444178006789 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 444178006790 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 444178006791 catalytic site [active] 444178006792 subunit interface [polypeptide binding]; other site 444178006793 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 444178006794 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 444178006795 LytTr DNA-binding domain; Region: LytTR; cl04498 444178006796 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 444178006797 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444178006798 Invariant surface glycoprotein; Region: ISG65-75; cl15448 444178006799 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178006800 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 444178006801 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444178006802 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178006803 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 444178006804 IMP binding site; other site 444178006805 dimer interface [polypeptide binding]; other site 444178006806 partial ornithine binding site; other site 444178006807 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 444178006808 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178006809 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 444178006810 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 444178006811 nudix motif; other site 444178006812 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 protein; Region: CSP_CDS; cd04458 444178006813 DNA-binding site [nucleotide binding]; DNA binding site 444178006814 RNA-binding motif; other site 444178006815 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 444178006816 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 444178006817 putative C-terminal domain interface [polypeptide binding]; other site 444178006818 putative GSH binding site (G-site) [chemical binding]; other site 444178006819 putative dimer interface [polypeptide binding]; other site 444178006820 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 444178006821 N-terminal domain interface [polypeptide binding]; other site 444178006822 dimer interface [polypeptide binding]; other site 444178006823 substrate binding pocket (H-site) [chemical binding]; other site 444178006824 aspartate aminotransferase; Provisional; Region: PRK05764 444178006825 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 444178006826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178006827 homodimer interface [polypeptide binding]; other site 444178006828 catalytic residue [active] 444178006829 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444178006830 Helix-turn-helix domains; Region: HTH; cl00088 444178006831 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 444178006832 putative effector binding pocket; other site 444178006833 dimerization interface [polypeptide binding]; other site 444178006834 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 444178006835 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178006836 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 444178006837 Cation transport protein; Region: TrkH; cl10514 444178006838 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 444178006839 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 444178006840 dimerization interface [polypeptide binding]; other site 444178006841 putative DNA binding site [nucleotide binding]; other site 444178006842 putative Zn2+ binding site [ion binding]; other site 444178006843 AsnC family; Region: AsnC_trans_reg; pfam01037 444178006844 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 444178006845 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 444178006846 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 444178006847 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 444178006848 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 444178006849 EamA-like transporter family; Region: EamA; cl01037 444178006850 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 444178006851 EamA-like transporter family; Region: EamA; cl01037 444178006852 Protein of unknown function, DUF486; Region: DUF486; cl01236 444178006853 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 444178006854 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 444178006855 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 444178006856 Bacterial SH3 domain; Region: SH3_3; cl02551 444178006857 excinuclease ABC subunit B; Provisional; Region: PRK05298 444178006858 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 444178006859 ATP binding site [chemical binding]; other site 444178006860 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 444178006861 nucleotide binding region [chemical binding]; other site 444178006862 ATP-binding site [chemical binding]; other site 444178006863 Ultra-violet resistance protein B; Region: UvrB; pfam12344 444178006864 UvrB/uvrC motif; Region: UVR; pfam02151 444178006865 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 444178006866 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444178006867 catalytic residue [active] 444178006868 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 protein; Region: CSP_CDS; cd04458 444178006869 DNA-binding site [nucleotide binding]; DNA binding site 444178006870 RNA-binding motif; other site 444178006871 BA14K-like protein; Region: BA14K; pfam07886 444178006872 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 444178006873 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 444178006874 Helix-turn-helix domains; Region: HTH; cl00088 444178006875 osmolarity response regulator; Provisional; Region: ompR; PRK09468 444178006876 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 444178006877 active site 444178006878 phosphorylation site [posttranslational modification] 444178006879 intermolecular recognition site; other site 444178006880 dimerization interface [polypeptide binding]; other site 444178006881 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 444178006882 DNA binding site [nucleotide binding] 444178006883 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; cl00080 444178006884 dimer interface [polypeptide binding]; other site 444178006885 phosphorylation site [posttranslational modification] 444178006886 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 444178006887 ATP binding site [chemical binding]; other site 444178006888 Mg2+ binding site [ion binding]; other site 444178006889 G-X-G motif; other site 444178006890 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 444178006891 dimer interface [polypeptide binding]; other site 444178006892 putative tRNA-binding site [nucleotide binding]; other site 444178006893 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 444178006894 Membrane fusogenic activity; Region: BMFP; cl01115 444178006895 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 444178006896 Uncharacterized conserved protein [Function unknown]; Region: COG1565 444178006897 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 444178006898 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 444178006899 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 444178006900 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 444178006901 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 444178006902 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 444178006903 active site 444178006904 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 444178006905 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 444178006906 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444178006907 active site 444178006908 HerA helicase [Replication, recombination, and repair]; Region: COG0433 444178006909 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 444178006910 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 444178006911 5S rRNA interface [nucleotide binding]; other site 444178006912 CTC domain interface [polypeptide binding]; other site 444178006913 L16 interface [polypeptide binding]; other site 444178006914 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 444178006915 putative active site [active] 444178006916 catalytic residue [active] 444178006917 GTP-binding protein YchF; Reviewed; Region: PRK09601 444178006918 YchF GTPase; Region: YchF; cd01900 444178006919 G1 box; other site 444178006920 GTP/Mg2+ binding site [chemical binding]; other site 444178006921 Switch I region; other site 444178006922 G2 box; other site 444178006923 Switch II region; other site 444178006924 G3 box; other site 444178006925 G4 box; other site 444178006926 G5 box; other site 444178006927 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 444178006928 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 444178006929 putative active site [active] 444178006930 putative catalytic site [active] 444178006931 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444178006932 active site 444178006933 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 444178006934 cytochrome b; Provisional; Region: CYTB; MTH00191 444178006935 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 444178006936 Qi binding site; other site 444178006937 intrachain domain interface; other site 444178006938 interchain domain interface [polypeptide binding]; other site 444178006939 heme bH binding site [chemical binding]; other site 444178006940 heme bL binding site [chemical binding]; other site 444178006941 Qo binding site; other site 444178006942 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 444178006943 interchain domain interface [polypeptide binding]; other site 444178006944 intrachain domain interface; other site 444178006945 Qi binding site; other site 444178006946 Qo binding site; other site 444178006947 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 444178006948 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 444178006949 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 444178006950 [2Fe-2S] cluster binding site [ion binding]; other site 444178006951 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 444178006952 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178006953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006954 Walker A/P-loop; other site 444178006955 ATP binding site [chemical binding]; other site 444178006956 Q-loop/lid; other site 444178006957 ABC transporter signature motif; other site 444178006958 Walker B; other site 444178006959 D-loop; other site 444178006960 H-loop/switch region; other site 444178006961 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 444178006962 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178006963 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 444178006964 Walker A/P-loop; other site 444178006965 ATP binding site [chemical binding]; other site 444178006966 Q-loop/lid; other site 444178006967 ABC transporter signature motif; other site 444178006968 Walker B; other site 444178006969 D-loop; other site 444178006970 H-loop/switch region; other site 444178006971 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 444178006972 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 444178006973 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 444178006974 Predicted acetyltransferase [General function prediction only]; Region: COG3153 444178006975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444178006976 Coenzyme A binding pocket [chemical binding]; other site 444178006977 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 444178006978 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 444178006979 active site 444178006980 NTP binding site [chemical binding]; other site 444178006981 metal binding triad [ion binding]; metal-binding site 444178006982 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 444178006983 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 444178006984 putative active site [active] 444178006985 putative CoA binding site [chemical binding]; other site 444178006986 nudix motif; other site 444178006987 metal binding site [ion binding]; metal-binding site 444178006988 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 444178006989 MoxR-like ATPases [General function prediction only]; Region: COG0714 444178006990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178006991 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 444178006992 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 444178006993 Aerotolerance regulator N-terminal; Region: BatA; cl06567 444178006994 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 444178006995 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 444178006996 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 444178006997 Predicted acetyltransferase [General function prediction only]; Region: COG3153 444178006998 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444178006999 Coenzyme A binding pocket [chemical binding]; other site 444178007000 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 444178007001 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 444178007002 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 444178007003 putative dimer interface [polypeptide binding]; other site 444178007004 N-terminal domain interface [polypeptide binding]; other site 444178007005 putative substrate binding pocket (H-site) [chemical binding]; other site 444178007006 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178007007 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_21; cd04680 444178007008 nudix motif; other site 444178007009 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 444178007010 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444178007011 active site 444178007012 metal binding site [ion binding]; metal-binding site 444178007013 2-isopropylmalate synthase; Validated; Region: PRK03739 444178007014 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 444178007015 active site 444178007016 catalytic residues [active] 444178007017 metal binding site [ion binding]; metal-binding site 444178007018 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 444178007019 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 444178007020 Cation efflux family; Region: Cation_efflux; cl00316 444178007021 anthranilate synthase; Provisional; Region: PRK13566 444178007022 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 444178007023 chorismate binding enzyme; Region: Chorismate_bind; cl10555 444178007024 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 444178007025 glutamine binding [chemical binding]; other site 444178007026 catalytic triad [active] 444178007027 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 444178007028 Helix-turn-helix domains; Region: HTH; cl00088 444178007029 AsnC family; Region: AsnC_trans_reg; pfam01037 444178007030 Transcriptional regulators [Transcription]; Region: MarR; COG1846 444178007031 Helix-turn-helix domains; Region: HTH; cl00088 444178007032 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 444178007033 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444178007034 putative substrate translocation pore; other site 444178007035 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; cl16911 444178007036 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 444178007037 NMT1-like family; Region: NMT1_2; cl15260 444178007038 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 444178007039 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 444178007040 dimer interface [polypeptide binding]; other site 444178007041 conserved gate region; other site 444178007042 putative PBP binding loops; other site 444178007043 ABC-ATPase subunit interface; other site 444178007044 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 444178007045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007046 Walker A/P-loop; other site 444178007047 ATP binding site [chemical binding]; other site 444178007048 Q-loop/lid; other site 444178007049 ABC transporter signature motif; other site 444178007050 Walker B; other site 444178007051 D-loop; other site 444178007052 H-loop/switch region; other site 444178007053 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 444178007054 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 444178007055 Walker A/P-loop; other site 444178007056 ATP binding site [chemical binding]; other site 444178007057 Q-loop/lid; other site 444178007058 ABC transporter signature motif; other site 444178007059 Walker B; other site 444178007060 D-loop; other site 444178007061 H-loop/switch region; other site 444178007062 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444178007063 dipeptide transporter; Provisional; Region: PRK10913 444178007064 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 444178007065 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 444178007066 dimer interface [polypeptide binding]; other site 444178007067 conserved gate region; other site 444178007068 putative PBP binding loops; other site 444178007069 ABC-ATPase subunit interface; other site 444178007070 dipeptide transporter permease DppB; Provisional; Region: PRK10914 444178007071 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 444178007072 dimer interface [polypeptide binding]; other site 444178007073 conserved gate region; other site 444178007074 putative PBP binding loops; other site 444178007075 ABC-ATPase subunit interface; other site 444178007076 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 444178007077 dimerization interface [polypeptide binding]; other site 444178007078 putative DNA binding site [nucleotide binding]; other site 444178007079 putative Zn2+ binding site [ion binding]; other site 444178007080 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 444178007081 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 444178007082 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 444178007083 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 444178007084 Ligand Binding Site [chemical binding]; other site 444178007085 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 444178007086 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178007087 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 444178007088 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 444178007089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 444178007090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 444178007091 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 444178007092 active site 444178007093 phosphorylation site [posttranslational modification] 444178007094 intermolecular recognition site; other site 444178007095 dimerization interface [polypeptide binding]; other site 444178007096 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 444178007097 DNA binding site [nucleotide binding] 444178007098 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 444178007099 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 444178007100 inhibitor-cofactor binding pocket; inhibition site 444178007101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178007102 catalytic residue [active] 444178007103 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178007104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007105 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 444178007106 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 444178007107 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 444178007108 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 444178007109 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 444178007110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 444178007111 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 444178007112 dimer interface [polypeptide binding]; other site 444178007113 phosphorylation site [posttranslational modification] 444178007114 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 444178007115 ATP binding site [chemical binding]; other site 444178007116 Mg2+ binding site [ion binding]; other site 444178007117 G-X-G motif; other site 444178007118 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178007119 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 444178007120 AsmA-like C-terminal region; Region: AsmA_2; cl15864 444178007121 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 444178007122 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178007123 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 444178007124 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 444178007125 non-specific DNA binding site [nucleotide binding]; other site 444178007126 salt bridge; other site 444178007127 sequence-specific DNA binding site [nucleotide binding]; other site 444178007128 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 444178007129 Domain of unknown function (DUF955); Region: DUF955; cl01076 444178007130 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 444178007131 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 444178007132 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 444178007133 tetramer interface [polypeptide binding]; other site 444178007134 active site 444178007135 Mg2+/Mn2+ binding site [ion binding]; other site 444178007136 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 444178007137 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 444178007138 NAD binding site [chemical binding]; other site 444178007139 substrate binding site [chemical binding]; other site 444178007140 homotetramer interface [polypeptide binding]; other site 444178007141 homodimer interface [polypeptide binding]; other site 444178007142 active site 444178007143 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 444178007144 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 444178007145 NAD binding site [chemical binding]; other site 444178007146 substrate binding site [chemical binding]; other site 444178007147 homotetramer interface [polypeptide binding]; other site 444178007148 homodimer interface [polypeptide binding]; other site 444178007149 active site 444178007150 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 444178007151 MarC family integral membrane protein; Region: MarC; cl00919 444178007152 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 444178007153 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 444178007154 active site 444178007155 nucleophile elbow; other site 444178007156 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 444178007157 DAK2 domain; Region: Dak2; cl03685 444178007158 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 444178007159 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 444178007160 DNA binding residues [nucleotide binding] 444178007161 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 444178007162 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 444178007163 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 444178007164 DAK2 domain; Region: Dak2; cl03685 444178007165 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 444178007166 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 444178007167 short chain dehydrogenase; Provisional; Region: PRK06841 444178007168 classical (c) SDRs; Region: SDR_c; cd05233 444178007169 NAD(P) binding site [chemical binding]; other site 444178007170 active site 444178007171 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 444178007172 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 444178007173 putative ligand binding site [chemical binding]; other site 444178007174 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 444178007175 TM-ABC transporter signature motif; other site 444178007176 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 444178007177 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007178 Walker A/P-loop; other site 444178007179 ATP binding site [chemical binding]; other site 444178007180 Q-loop/lid; other site 444178007181 ABC transporter signature motif; other site 444178007182 Walker B; other site 444178007183 D-loop; other site 444178007184 H-loop/switch region; other site 444178007185 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 444178007186 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 444178007187 choline dehydrogenase; Validated; Region: PRK02106 444178007188 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 444178007189 Transcriptional regulator [Transcription]; Region: IclR; COG1414 444178007190 Helix-turn-helix domains; Region: HTH; cl00088 444178007191 Bacterial transcriptional regulator; Region: IclR; pfam01614 444178007192 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178007193 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 444178007194 tetramerization interface [polypeptide binding]; other site 444178007195 NAD(P) binding site [chemical binding]; other site 444178007196 catalytic residues [active] 444178007197 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 444178007198 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 444178007199 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 444178007200 active site 444178007201 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 444178007202 helix-hairpin-helix signature motif; other site 444178007203 substrate binding pocket [chemical binding]; other site 444178007204 active site 444178007205 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444178007206 active site 444178007207 HIGH motif; other site 444178007208 nucleotide binding site [chemical binding]; other site 444178007209 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444178007210 active site 444178007211 KMSKS motif; other site 444178007212 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 444178007213 active site 444178007214 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 444178007215 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178007216 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 444178007217 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 444178007218 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444178007219 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 444178007220 DNA binding residues [nucleotide binding] 444178007221 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 444178007222 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 444178007223 RNA binding surface [nucleotide binding]; other site 444178007224 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 444178007225 active site 444178007226 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 444178007227 metal binding site 2 [ion binding]; metal-binding site 444178007228 putative DNA binding helix; other site 444178007229 metal binding site 1 [ion binding]; metal-binding site 444178007230 dimer interface [polypeptide binding]; other site 444178007231 structural Zn2+ binding site [ion binding]; other site 444178007232 PAS fold; Region: PAS_4; pfam08448 444178007233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 444178007234 Histidine kinase; Region: HisKA_2; cl06527 444178007235 two-component response regulator; Provisional; Region: PRK09191 444178007236 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 444178007237 active site 444178007238 phosphorylation site [posttranslational modification] 444178007239 intermolecular recognition site; other site 444178007240 dimerization interface [polypeptide binding]; other site 444178007241 RNA polymerase sigma factor; Provisional; Region: PRK12516 444178007242 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444178007243 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 444178007244 DNA binding residues [nucleotide binding] 444178007245 CHASE3 domain; Region: CHASE3; cl05000 444178007246 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 444178007247 Histidine kinase; Region: HisKA_2; cl06527 444178007248 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 444178007249 ATP binding site [chemical binding]; other site 444178007250 Mg2+ binding site [ion binding]; other site 444178007251 G-X-G motif; other site 444178007252 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 444178007253 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 444178007254 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 444178007255 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 444178007256 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 444178007257 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 444178007258 Gram-negative bacterial tonB protein; Region: TonB; cl10048 444178007259 Predicted periplasmic protein [Function unknown]; Region: COG3698 444178007260 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 444178007261 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 444178007262 Walker A/P-loop; other site 444178007263 ATP binding site [chemical binding]; other site 444178007264 Q-loop/lid; other site 444178007265 ABC transporter signature motif; other site 444178007266 Walker B; other site 444178007267 D-loop; other site 444178007268 H-loop/switch region; other site 444178007269 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 444178007270 FtsX-like permease family; Region: FtsX; cl15850 444178007271 macrolide transporter subunit MacA; Provisional; Region: PRK11578 444178007272 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178007273 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 444178007274 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 444178007275 trimer interface [polypeptide binding]; other site 444178007276 active site 444178007277 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 444178007278 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 444178007279 dimerization interface [polypeptide binding]; other site 444178007280 putative DNA binding site [nucleotide binding]; other site 444178007281 putative Zn2+ binding site [ion binding]; other site 444178007282 AsnC family; Region: AsnC_trans_reg; pfam01037 444178007283 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 444178007284 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 444178007285 putative active site [active] 444178007286 putative dimer interface [polypeptide binding]; other site 444178007287 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 444178007288 diiron binding motif [ion binding]; other site 444178007289 Uncharacterized conserved protein [Function unknown]; Region: COG1633 444178007290 CCC1-related protein family; Region: CCC1_like_1; cd02437 444178007291 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 444178007292 metabolite-proton symporter; Region: 2A0106; TIGR00883 444178007293 putative substrate translocation pore; other site 444178007294 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 444178007295 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 444178007296 GDP-binding site [chemical binding]; other site 444178007297 ACT binding site; other site 444178007298 IMP binding site; other site 444178007299 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 444178007300 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178007301 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 444178007302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007303 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 444178007304 putative L-serine binding site [chemical binding]; other site 444178007305 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; cd01494 444178007306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444178007307 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 444178007308 catalytic residue [active] 444178007309 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 444178007310 Membrane transport protein; Region: Mem_trans; cl09117 444178007311 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 444178007312 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 444178007313 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 444178007314 active site 444178007315 substrate binding site [chemical binding]; other site 444178007316 metal binding site [ion binding]; metal-binding site 444178007317 FtsH Extracellular; Region: FtsH_ext; pfam06480 444178007318 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 444178007319 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 444178007320 Walker A motif; other site 444178007321 ATP binding site [chemical binding]; other site 444178007322 Walker B motif; other site 444178007323 arginine finger; other site 444178007324 Peptidase family M41; Region: Peptidase_M41; pfam01434 444178007325 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 444178007326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 444178007327 Tetratricopeptide repeat; Region: TPR_6; pfam13174 444178007328 putative outer membrane lipoprotein; Provisional; Region: PRK09967 444178007329 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444178007330 ligand binding site [chemical binding]; other site 444178007331 translocation protein TolB; Provisional; Region: tolB; PRK05137 444178007332 TolB amino-terminal domain; Region: TolB_N; cl00639 444178007333 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 444178007334 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 444178007335 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 444178007336 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 444178007337 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 444178007338 active site 444178007339 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 444178007340 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 444178007341 Walker A motif; other site 444178007342 ATP binding site [chemical binding]; other site 444178007343 Walker B motif; other site 444178007344 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 444178007345 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 444178007346 RuvA N terminal domain; Region: RuvA_N; pfam01330 444178007347 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 444178007348 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 444178007349 active site 444178007350 putative DNA-binding cleft [nucleotide binding]; other site 444178007351 dimer interface [polypeptide binding]; other site 444178007352 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 444178007353 OpgC protein; Region: OpgC_C; cl00792 444178007354 Acyltransferase family; Region: Acyl_transf_3; pfam01757 444178007355 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 444178007356 active site 444178007357 thiamine phosphate binding site [chemical binding]; other site 444178007358 pyrophosphate binding site [ion binding]; other site 444178007359 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 444178007360 Sel1 repeat; Region: Sel1; cl02723 444178007361 Sel1 repeat; Region: Sel1; cl02723 444178007362 Sel1 repeat; Region: Sel1; cl02723 444178007363 elongation factor P; Validated; Region: PRK00529 444178007364 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 444178007365 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 444178007366 RNA binding site [nucleotide binding]; other site 444178007367 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 444178007368 RNA binding site [nucleotide binding]; other site 444178007369 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 444178007370 active site 444178007371 dimerization interface [polypeptide binding]; other site 444178007372 hypothetical protein; Validated; Region: PRK09039 444178007373 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444178007374 ligand binding site [chemical binding]; other site 444178007375 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 444178007376 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 444178007377 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007378 Walker A/P-loop; other site 444178007379 ATP binding site [chemical binding]; other site 444178007380 Q-loop/lid; other site 444178007381 ABC transporter signature motif; other site 444178007382 Walker B; other site 444178007383 D-loop; other site 444178007384 H-loop/switch region; other site 444178007385 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 444178007386 Transcriptional regulator; Region: Transcrip_reg; cl00361 444178007387 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444178007388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178007389 DNA-binding site [nucleotide binding]; DNA binding site 444178007390 FCD domain; Region: FCD; cl11656 444178007391 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 444178007392 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 444178007393 Integral membrane protein TerC family; Region: TerC; cl10468 444178007394 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 444178007395 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444178007396 putative active site [active] 444178007397 metal binding site [ion binding]; metal-binding site 444178007398 homodimer binding site [polypeptide binding]; other site 444178007399 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 444178007400 Cell division protein ZapA; Region: ZapA; cl01146 444178007401 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 444178007402 transketolase; Reviewed; Region: PRK05899 444178007403 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 444178007404 TPP-binding site [chemical binding]; other site 444178007405 dimer interface [polypeptide binding]; other site 444178007406 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 444178007407 PYR/PP interface [polypeptide binding]; other site 444178007408 dimer interface [polypeptide binding]; other site 444178007409 TPP binding site [chemical binding]; other site 444178007410 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 444178007411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007412 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 444178007413 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 444178007414 Phosphoglycerate kinase; Region: PGK; pfam00162 444178007415 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 444178007416 substrate binding site [chemical binding]; other site 444178007417 hinge regions; other site 444178007418 ADP binding site [chemical binding]; other site 444178007419 catalytic site [active] 444178007420 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 444178007421 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 444178007422 AMP-binding enzyme; Region: AMP-binding; cl15778 444178007423 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444178007424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007425 Helix-turn-helix domains; Region: HTH; cl00088 444178007426 WYL domain; Region: WYL; cl14852 444178007427 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 444178007428 CoenzymeA binding site [chemical binding]; other site 444178007429 subunit interaction site [polypeptide binding]; other site 444178007430 PHB binding site; other site 444178007431 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 444178007432 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 444178007433 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 444178007434 NAD(P) binding site [chemical binding]; other site 444178007435 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 444178007436 putative MFS family transporter protein; Provisional; Region: PRK03633 444178007437 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 444178007438 putative substrate translocation pore; other site 444178007439 Protein of unknown function (DUF465); Region: DUF465; cl01070 444178007440 Protein of unknown function (DUF465); Region: DUF465; cl01070 444178007441 AIR carboxylase; Region: AIRC; cl00310 444178007442 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 444178007443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007444 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178007445 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 444178007446 TPR repeat; Region: TPR_11; pfam13414 444178007447 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 444178007448 TPR motif; other site 444178007449 binding surface 444178007450 pyruvate kinase; Provisional; Region: PRK06247 444178007451 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; cl09155 444178007452 domain interfaces; other site 444178007453 active site 444178007454 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 444178007455 N-formylglutamate amidohydrolase; Region: FGase; cl01522 444178007456 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 444178007457 ABC transporter ATPase component; Reviewed; Region: PRK11147 444178007458 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 444178007459 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 444178007460 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 444178007461 Thiamine pyrophosphokinase; Region: TPK; cd07995 444178007462 active site 444178007463 dimerization interface [polypeptide binding]; other site 444178007464 thiamine binding site [chemical binding]; other site 444178007465 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 444178007466 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178007467 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 444178007468 ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins...; Region: ABC_ThiQ_thiamine_transporter; cd03298 444178007469 Walker A/P-loop; other site 444178007470 ATP binding site [chemical binding]; other site 444178007471 Q-loop/lid; other site 444178007472 ABC transporter signature motif; other site 444178007473 Walker B; other site 444178007474 D-loop; other site 444178007475 H-loop/switch region; other site 444178007476 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 444178007477 Peptidase family M48; Region: Peptidase_M48; cl12018 444178007478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 444178007479 MOSC domain; Region: MOSC; pfam03473 444178007480 3-alpha domain; Region: 3-alpha; pfam03475 444178007481 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 444178007482 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444178007483 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 444178007484 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 444178007485 Ferredoxin [Energy production and conversion]; Region: COG1146 444178007486 4Fe-4S binding domain; Region: Fer4; cl02805 444178007487 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 444178007488 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 444178007489 RNA binding surface [nucleotide binding]; other site 444178007490 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007491 ATP binding site [chemical binding]; other site 444178007492 putative Mg++ binding site [ion binding]; other site 444178007493 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 444178007494 nucleotide binding region [chemical binding]; other site 444178007495 Superfamily II helicase [General function prediction only]; Region: COG1204 444178007496 ATP-binding site [chemical binding]; other site 444178007497 putative acyltransferase; Provisional; Region: PRK05790 444178007498 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 444178007499 dimer interface [polypeptide binding]; other site 444178007500 active site 444178007501 Domain of unknown function (DUF336); Region: DUF336; cl01249 444178007502 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 444178007503 Transglycosylase; Region: Transgly; cl07896 444178007504 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 444178007505 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 444178007506 substrate binding pocket [chemical binding]; other site 444178007507 chain length determination region; other site 444178007508 substrate-Mg2+ binding site; other site 444178007509 catalytic residues [active] 444178007510 aspartate-rich region 1; other site 444178007511 active site lid residues [active] 444178007512 aspartate-rich region 2; other site 444178007513 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 444178007514 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 444178007515 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 444178007516 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 444178007517 putative substrate translocation pore; other site 444178007518 pyruvate carboxylase; Reviewed; Region: PRK12999 444178007519 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444178007520 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178007521 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 444178007522 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 444178007523 active site 444178007524 catalytic residues [active] 444178007525 metal binding site [ion binding]; metal-binding site 444178007526 homodimer binding site [polypeptide binding]; other site 444178007527 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 444178007528 carboxyltransferase (CT) interaction site; other site 444178007529 biotinylation site [posttranslational modification]; other site 444178007530 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178007531 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 444178007532 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 444178007533 dimerization interface [polypeptide binding]; other site 444178007534 ligand binding site [chemical binding]; other site 444178007535 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 444178007536 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 444178007537 Walker A/P-loop; other site 444178007538 ATP binding site [chemical binding]; other site 444178007539 Q-loop/lid; other site 444178007540 ABC transporter signature motif; other site 444178007541 Walker B; other site 444178007542 D-loop; other site 444178007543 H-loop/switch region; other site 444178007544 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 444178007545 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 444178007546 Walker A/P-loop; other site 444178007547 ATP binding site [chemical binding]; other site 444178007548 Q-loop/lid; other site 444178007549 ABC transporter signature motif; other site 444178007550 Walker B; other site 444178007551 D-loop; other site 444178007552 H-loop/switch region; other site 444178007553 Uncharacterized conserved protein [Function unknown]; Region: COG3743 444178007554 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 444178007555 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 444178007556 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 444178007557 TM-ABC transporter signature motif; other site 444178007558 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 444178007559 TM-ABC transporter signature motif; other site 444178007560 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 444178007561 Proline racemase; Region: Pro_racemase; pfam05544 444178007562 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 444178007563 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444178007564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178007565 DNA-binding site [nucleotide binding]; DNA binding site 444178007566 FCD domain; Region: FCD; cl11656 444178007567 Helix-turn-helix domains; Region: HTH; cl00088 444178007568 transcriptional regulator SlyA; Provisional; Region: PRK03573 444178007569 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 444178007570 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 444178007571 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 444178007572 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 444178007573 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 444178007574 alpha subunit interaction interface [polypeptide binding]; other site 444178007575 Walker A motif; other site 444178007576 ATP binding site [chemical binding]; other site 444178007577 Walker B motif; other site 444178007578 inhibitor binding site; inhibition site 444178007579 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 444178007580 ATP synthase; Region: ATP-synt; cl00365 444178007581 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 444178007582 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 444178007583 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 444178007584 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 444178007585 beta subunit interaction interface [polypeptide binding]; other site 444178007586 Walker A motif; other site 444178007587 ATP binding site [chemical binding]; other site 444178007588 Walker B motif; other site 444178007589 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 444178007590 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 444178007591 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 444178007592 primosome assembly protein PriA; Validated; Region: PRK05580 444178007593 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 444178007594 ATP binding site [chemical binding]; other site 444178007595 putative Mg++ binding site [ion binding]; other site 444178007596 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007597 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 444178007598 active site 444178007599 intersubunit interactions; other site 444178007600 catalytic residue [active] 444178007601 Lipopolysaccharide-assembly; Region: LptE; cl01125 444178007602 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 444178007603 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 444178007604 HIGH motif; other site 444178007605 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 444178007606 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444178007607 active site 444178007608 KMSKS motif; other site 444178007609 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 444178007610 tRNA binding surface [nucleotide binding]; other site 444178007611 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 444178007612 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444178007613 catalytic residue [active] 444178007614 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 444178007615 Usg-like family; Region: Usg; cl11567 444178007616 acetyl-CoA synthetase; Provisional; Region: PRK00174 444178007617 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 444178007618 AMP-binding enzyme; Region: AMP-binding; cl15778 444178007619 AMP-binding enzyme; Region: AMP-binding; cl15778 444178007620 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444178007621 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 444178007622 Peptidase family M48; Region: Peptidase_M48; cl12018 444178007623 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 444178007624 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 444178007625 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 444178007626 S-adenosylmethionine binding site [chemical binding]; other site 444178007627 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 444178007628 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 444178007629 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 444178007630 purine monophosphate binding site [chemical binding]; other site 444178007631 dimer interface [polypeptide binding]; other site 444178007632 putative catalytic residues [active] 444178007633 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 444178007634 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 444178007635 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 444178007636 Repair protein; Region: Repair_PSII; cl01535 444178007637 Repair protein; Region: Repair_PSII; cl01535 444178007638 LemA family; Region: LemA; cl00742 444178007639 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 444178007640 Chorismate mutase type II; Region: CM_2; cl00693 444178007641 signal recognition particle protein; Provisional; Region: PRK10867 444178007642 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 444178007643 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 444178007644 P loop; other site 444178007645 GTP binding site [chemical binding]; other site 444178007646 Signal peptide binding domain; Region: SRP_SPB; pfam02978 444178007647 lytic murein transglycosylase; Region: MltB_2; TIGR02283 444178007648 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 444178007649 pyridoxamine kinase; Validated; Region: PRK05756 444178007650 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 444178007651 dimer interface [polypeptide binding]; other site 444178007652 pyridoxal binding site [chemical binding]; other site 444178007653 ATP binding site [chemical binding]; other site 444178007654 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178007655 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 444178007656 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178007657 tetrameric interface [polypeptide binding]; other site 444178007658 NAD binding site [chemical binding]; other site 444178007659 catalytic residues [active] 444178007660 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444178007661 Helix-turn-helix domains; Region: HTH; cl00088 444178007662 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178007663 dimerization interface [polypeptide binding]; other site 444178007664 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 444178007665 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 444178007666 putative active site [active] 444178007667 Ap4A binding site [chemical binding]; other site 444178007668 nudix motif; other site 444178007669 putative metal binding site [ion binding]; other site 444178007670 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 444178007671 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 444178007672 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 444178007673 protein binding site [polypeptide binding]; other site 444178007674 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 444178007675 Catalytic dyad [active] 444178007676 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 444178007677 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 444178007678 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 444178007679 Oligomerisation domain; Region: Oligomerisation; cl00519 444178007680 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 444178007681 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 444178007682 active site 444178007683 (T/H)XGH motif; other site 444178007684 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 444178007685 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 444178007686 putative catalytic cysteine [active] 444178007687 gamma-glutamyl kinase; Provisional; Region: PRK05429 444178007688 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 444178007689 nucleotide binding site [chemical binding]; other site 444178007690 homotetrameric interface [polypeptide binding]; other site 444178007691 putative phosphate binding site [ion binding]; other site 444178007692 putative allosteric binding site; other site 444178007693 PUA domain; Region: PUA; cl00607 444178007694 GTPase CgtA; Reviewed; Region: obgE; PRK12299 444178007695 GTP1/OBG; Region: GTP1_OBG; pfam01018 444178007696 Obg GTPase; Region: Obg; cd01898 444178007697 G1 box; other site 444178007698 GTP/Mg2+ binding site [chemical binding]; other site 444178007699 Switch I region; other site 444178007700 G2 box; other site 444178007701 G3 box; other site 444178007702 Switch II region; other site 444178007703 G4 box; other site 444178007704 G5 box; other site 444178007705 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 444178007706 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178007707 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 444178007708 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178007709 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 444178007710 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 444178007711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 444178007712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 444178007713 Integrase core domain; Region: rve; cl01316 444178007714 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 444178007715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 444178007716 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178007717 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 444178007718 Clp amino terminal domain; Region: Clp_N; pfam02861 444178007719 Clp amino terminal domain; Region: Clp_N; pfam02861 444178007720 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 444178007721 Walker A motif; other site 444178007722 ATP binding site [chemical binding]; other site 444178007723 Walker B motif; other site 444178007724 arginine finger; other site 444178007725 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 444178007726 Walker A motif; other site 444178007727 ATP binding site [chemical binding]; other site 444178007728 Walker B motif; other site 444178007729 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 444178007730 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 444178007731 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 444178007732 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 444178007733 S-adenosylmethionine binding site [chemical binding]; other site 444178007734 peptide chain release factor 1; Validated; Region: prfA; PRK00591 444178007735 RF-1 domain; Region: RF-1; cl02875 444178007736 RF-1 domain; Region: RF-1; cl02875 444178007737 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 444178007738 GAF domain; Region: GAF; cl15785 444178007739 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 444178007740 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 444178007741 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; cl09155 444178007742 aspartate kinase; Reviewed; Region: PRK06635 444178007743 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 444178007744 putative nucleotide binding site [chemical binding]; other site 444178007745 putative catalytic residues [active] 444178007746 putative Mg ion binding site [ion binding]; other site 444178007747 putative aspartate binding site [chemical binding]; other site 444178007748 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 444178007749 putative allosteric regulatory site; other site 444178007750 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 444178007751 putative allosteric regulatory residue; other site 444178007752 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 444178007753 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 444178007754 S-adenosylmethionine binding site [chemical binding]; other site 444178007755 EamA-like transporter family; Region: EamA; cl01037 444178007756 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 444178007757 Predicted amidohydrolase [General function prediction only]; Region: COG0388 444178007758 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 444178007759 putative active site [active] 444178007760 catalytic triad [active] 444178007761 dimer interface [polypeptide binding]; other site 444178007762 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 444178007763 GSH binding site [chemical binding]; other site 444178007764 catalytic residues [active] 444178007765 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 444178007766 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444178007767 active site 444178007768 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; cl16911 444178007769 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 444178007770 putative substrate translocation pore; other site 444178007771 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 444178007772 putative metal binding site [ion binding]; other site 444178007773 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 444178007774 HemY protein N-terminus; Region: HemY_N; pfam07219 444178007775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 444178007776 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 444178007777 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 444178007778 active site 444178007779 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 444178007780 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 444178007781 domain interfaces; other site 444178007782 active site 444178007783 UGMP family protein; Validated; Region: PRK09604 444178007784 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 444178007785 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 444178007786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007787 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 444178007788 YCII-related domain; Region: YCII; cl00999 444178007789 EVE domain; Region: EVE; cl00728 444178007790 Predicted methyltransferase [General function prediction only]; Region: COG3897 444178007791 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 444178007792 S-adenosylmethionine binding site [chemical binding]; other site 444178007793 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 444178007794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178007795 DNA-binding site [nucleotide binding]; DNA binding site 444178007796 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 444178007797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178007798 homodimer interface [polypeptide binding]; other site 444178007799 catalytic residue [active] 444178007800 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 444178007801 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007802 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 444178007803 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 444178007804 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 444178007805 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 444178007806 active site 444178007807 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 444178007808 catalytic triad [active] 444178007809 dimer interface [polypeptide binding]; other site 444178007810 hypothetical protein; Provisional; Region: PRK05415 444178007811 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 444178007812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007813 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 444178007814 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444178007815 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 444178007816 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; cl00159 444178007817 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 444178007818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007819 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 444178007820 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 444178007821 putative SdhC subunit interface [polypeptide binding]; other site 444178007822 putative proximal heme binding site [chemical binding]; other site 444178007823 putative Iron-sulfur protein interface [polypeptide binding]; other site 444178007824 putative proximal quinone binding site; other site 444178007825 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 444178007826 Iron-sulfur protein interface; other site 444178007827 proximal quinone binding site [chemical binding]; other site 444178007828 SdhD (CybS) interface [polypeptide binding]; other site 444178007829 proximal heme binding site [chemical binding]; other site 444178007830 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 444178007831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444178007832 Coenzyme A binding pocket [chemical binding]; other site 444178007833 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 444178007834 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 444178007835 substrate binding site [chemical binding]; other site 444178007836 ligand binding site [chemical binding]; other site 444178007837 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 444178007838 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 444178007839 Na binding site [ion binding]; other site 444178007840 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 444178007841 NIPSNAP; Region: NIPSNAP; pfam07978 444178007842 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 444178007843 dimerization interface [polypeptide binding]; other site 444178007844 putative DNA binding site [nucleotide binding]; other site 444178007845 putative Zn2+ binding site [ion binding]; other site 444178007846 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 444178007847 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 444178007848 RimM N-terminal domain; Region: RimM; pfam01782 444178007849 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 444178007850 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 444178007851 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 444178007852 active site 444178007853 DNA binding site [nucleotide binding] 444178007854 Int/Topo IB signature motif; other site 444178007855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 444178007856 TraB family; Region: TraB; cl12050 444178007857 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 444178007858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007859 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444178007860 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 444178007861 LysE type translocator; Region: LysE; cl00565 444178007862 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 444178007863 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 444178007864 E3 interaction surface; other site 444178007865 lipoyl attachment site [posttranslational modification]; other site 444178007866 e3 binding domain; Region: E3_binding; pfam02817 444178007867 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 444178007868 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 444178007869 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 444178007870 TPP-binding site [chemical binding]; other site 444178007871 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 444178007872 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 444178007873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007874 CoA-ligase; Region: Ligase_CoA; cl02894 444178007875 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 444178007876 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178007877 CoA-ligase; Region: Ligase_CoA; cl02894 444178007878 malate dehydrogenase; Reviewed; Region: PRK06223 444178007879 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 444178007880 NAD(P) binding site [chemical binding]; other site 444178007881 dimer interface [polypeptide binding]; other site 444178007882 tetramer (dimer of dimers) interface [polypeptide binding]; other site 444178007883 substrate binding site [chemical binding]; other site 444178007884 Predicted ATPase [General function prediction only]; Region: COG1485 444178007885 Protease inhibitor Inh; Region: Inh; pfam02974 444178007886 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 444178007887 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 444178007888 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 444178007889 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 444178007890 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 444178007891 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 444178007892 FeS/SAM binding site; other site 444178007893 2-oxoglutarate dehydrogenase E2 component; Region: PLN02226 444178007894 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 444178007895 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 444178007896 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007897 Intracellular septation protein A; Region: IspA; cl01098 444178007898 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 444178007899 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 444178007900 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 444178007901 active site 444178007902 8-oxo-dGMP binding site [chemical binding]; other site 444178007903 nudix motif; other site 444178007904 metal binding site [ion binding]; metal-binding site 444178007905 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178007906 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 444178007907 heterotetramer interface [polypeptide binding]; other site 444178007908 active site pocket [active] 444178007909 cleavage site 444178007910 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 444178007911 PPIC-type PPIASE domain; Region: Rotamase; cl08278 444178007912 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 444178007913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007914 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 444178007915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178007916 nucleotide binding region [chemical binding]; other site 444178007917 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 444178007918 SEC-C motif; Region: SEC-C; pfam02810 444178007919 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178007920 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 444178007921 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 444178007922 Sulfatase; Region: Sulfatase; cl10460 444178007923 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 444178007924 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 444178007925 substrate binding pocket [chemical binding]; other site 444178007926 membrane-bound complex binding site; other site 444178007927 hinge residues; other site 444178007928 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 444178007929 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 444178007930 dimer interface [polypeptide binding]; other site 444178007931 conserved gate region; other site 444178007932 putative PBP binding loops; other site 444178007933 ABC-ATPase subunit interface; other site 444178007934 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 444178007935 dimer interface [polypeptide binding]; other site 444178007936 conserved gate region; other site 444178007937 putative PBP binding loops; other site 444178007938 ABC-ATPase subunit interface; other site 444178007939 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 444178007940 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 444178007941 Walker A/P-loop; other site 444178007942 ATP binding site [chemical binding]; other site 444178007943 Q-loop/lid; other site 444178007944 ABC transporter signature motif; other site 444178007945 Walker B; other site 444178007946 D-loop; other site 444178007947 H-loop/switch region; other site 444178007948 Arginase family; Region: Arginase; cl00306 444178007949 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 444178007950 Aspartase; Region: Aspartase; cd01357 444178007951 active sites [active] 444178007952 tetramer interface [polypeptide binding]; other site 444178007953 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 444178007954 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 444178007955 Walker A/P-loop; other site 444178007956 ATP binding site [chemical binding]; other site 444178007957 Q-loop/lid; other site 444178007958 ABC transporter signature motif; other site 444178007959 Walker B; other site 444178007960 D-loop; other site 444178007961 H-loop/switch region; other site 444178007962 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 444178007963 active site 444178007964 homotetramer interface [polypeptide binding]; other site 444178007965 homodimer interface [polypeptide binding]; other site 444178007966 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444178007967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444178007968 DNA-binding site [nucleotide binding]; DNA binding site 444178007969 FCD domain; Region: FCD; cl11656 444178007970 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 444178007971 active site 444178007972 homotetramer interface [polypeptide binding]; other site 444178007973 homodimer interface [polypeptide binding]; other site 444178007974 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 444178007975 D-galactonate transporter; Region: 2A0114; TIGR00893 444178007976 putative substrate translocation pore; other site 444178007977 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 444178007978 Ligand Binding Site [chemical binding]; other site 444178007979 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 444178007980 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 444178007981 dimer interface [polypeptide binding]; other site 444178007982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178007983 catalytic residue [active] 444178007984 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 444178007985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178007986 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 444178007987 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 444178007988 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 444178007989 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 444178007990 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 444178007991 Ligand binding site [chemical binding]; other site 444178007992 Electron transfer flavoprotein domain; Region: ETF; pfam01012 444178007993 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 444178007994 Ligand Binding Site [chemical binding]; other site 444178007995 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 444178007996 active site 444178007997 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 444178007998 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 444178007999 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 444178008000 short chain dehydrogenase; Validated; Region: PRK06182 444178008001 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 444178008002 NADP binding site [chemical binding]; other site 444178008003 active site 444178008004 steroid binding site; other site 444178008005 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 444178008006 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 444178008007 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 444178008008 catalytic residues [active] 444178008009 argininosuccinate lyase; Provisional; Region: PRK00855 444178008010 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 444178008011 active sites [active] 444178008012 tetramer interface [polypeptide binding]; other site 444178008013 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 444178008014 diaminopimelate decarboxylase; Region: lysA; TIGR01048 444178008015 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 444178008016 active site 444178008017 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444178008018 substrate binding site [chemical binding]; other site 444178008019 catalytic residues [active] 444178008020 dimer interface [polypeptide binding]; other site 444178008021 TIGR02302 family protein; Region: aProt_lowcomp 444178008022 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444178008023 active site 444178008024 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; cl16911 444178008025 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 444178008026 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 444178008027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178008028 homodimer interface [polypeptide binding]; other site 444178008029 catalytic residue [active] 444178008030 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 444178008031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 444178008033 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 444178008034 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 444178008035 putative active site pocket [active] 444178008036 dimerization interface [polypeptide binding]; other site 444178008037 putative catalytic residue [active] 444178008038 YGGT family; Region: YGGT; cl00508 444178008039 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 444178008040 dimer interface [polypeptide binding]; other site 444178008041 substrate binding site [chemical binding]; other site 444178008042 metal binding sites [ion binding]; metal-binding site 444178008043 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 444178008044 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 444178008045 putative acyl-acceptor binding pocket; other site 444178008046 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 444178008047 putative active site [active] 444178008048 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 444178008049 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 444178008050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178008051 Walker A/P-loop; other site 444178008052 ATP binding site [chemical binding]; other site 444178008053 Q-loop/lid; other site 444178008054 ABC transporter signature motif; other site 444178008055 Walker B; other site 444178008056 D-loop; other site 444178008057 H-loop/switch region; other site 444178008058 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 444178008059 amphipathic channel; other site 444178008060 Asn-Pro-Ala signature motifs; other site 444178008061 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 444178008062 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 444178008063 putative catalytic site [active] 444178008064 putative phosphate binding site [ion binding]; other site 444178008065 active site 444178008066 metal binding site A [ion binding]; metal-binding site 444178008067 DNA binding site [nucleotide binding] 444178008068 putative AP binding site [nucleotide binding]; other site 444178008069 putative metal binding site B [ion binding]; other site 444178008070 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 444178008071 ligand binding site [chemical binding]; other site 444178008072 flexible hinge region; other site 444178008073 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 444178008074 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 444178008075 active site 444178008076 phosphorylation site [posttranslational modification] 444178008077 intermolecular recognition site; other site 444178008078 dimerization interface [polypeptide binding]; other site 444178008079 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 444178008080 DNA binding site [nucleotide binding] 444178008081 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 444178008082 DDE superfamily endonuclease; Region: DDE_4; cl15789 444178008083 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 444178008084 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 444178008085 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 444178008086 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 444178008087 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 444178008088 DNA binding residues [nucleotide binding] 444178008089 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 444178008090 dimer interface [polypeptide binding]; other site 444178008091 putative metal binding site [ion binding]; other site 444178008092 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 444178008093 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 444178008094 metal-binding site [ion binding] 444178008095 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 444178008096 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 444178008097 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 444178008098 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 444178008099 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 444178008100 metal ion-dependent adhesion site (MIDAS); other site 444178008101 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 444178008102 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 444178008103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178008104 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 444178008105 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 444178008106 HSP70 interaction site [polypeptide binding]; other site 444178008107 BolA-like protein; Region: BolA; cl00386 444178008108 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 444178008109 Domain of unknown function DUF21; Region: DUF21; pfam01595 444178008110 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 444178008111 Transporter associated domain; Region: CorC_HlyC; cl08393 444178008112 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 444178008113 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 444178008114 active site 444178008115 dimer interface [polypeptide binding]; other site 444178008116 metal binding site [ion binding]; metal-binding site 444178008117 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 444178008118 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 444178008119 ADP binding site [chemical binding]; other site 444178008120 magnesium binding site [ion binding]; other site 444178008121 putative shikimate binding site; other site 444178008122 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 444178008123 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 444178008124 active site 444178008125 DNA binding site [nucleotide binding] 444178008126 Int/Topo IB signature motif; other site 444178008127 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 444178008128 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 444178008129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 444178008130 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 444178008131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178008132 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 444178008133 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 444178008134 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 444178008135 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 444178008136 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 444178008137 metal binding site [ion binding]; metal-binding site 444178008138 putative dimer interface [polypeptide binding]; other site 444178008139 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 444178008140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008141 NAD(P) binding site [chemical binding]; other site 444178008142 active site 444178008143 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 444178008144 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 444178008145 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 444178008146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008147 NAD(P) binding site [chemical binding]; other site 444178008148 active site 444178008149 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444178008150 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 444178008151 NAD(P) binding site [chemical binding]; other site 444178008152 catalytic residues [active] 444178008153 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 444178008154 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 444178008155 substrate binding site [chemical binding]; other site 444178008156 oxyanion hole (OAH) forming residues; other site 444178008157 trimer interface [polypeptide binding]; other site 444178008158 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178008159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008160 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 444178008161 Transcriptional regulators [Transcription]; Region: PurR; COG1609 444178008162 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444178008163 DNA binding site [nucleotide binding] 444178008164 domain linker motif; other site 444178008165 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 444178008166 putative dimerization interface [polypeptide binding]; other site 444178008167 putative ligand binding site [chemical binding]; other site 444178008168 Protein of unknown function (DUF993); Region: DUF993; pfam06187 444178008169 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 444178008170 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 444178008171 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 444178008172 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 444178008173 zinc binding site [ion binding]; other site 444178008174 putative ligand binding site [chemical binding]; other site 444178008175 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 444178008176 TM-ABC transporter signature motif; other site 444178008177 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 444178008178 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 444178008179 Walker A/P-loop; other site 444178008180 ATP binding site [chemical binding]; other site 444178008181 Q-loop/lid; other site 444178008182 ABC transporter signature motif; other site 444178008183 Walker B; other site 444178008184 D-loop; other site 444178008185 H-loop/switch region; other site 444178008186 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 444178008187 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 444178008188 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 444178008189 ParB-like nuclease domain; Region: ParBc; cl02129 444178008190 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 444178008191 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 444178008192 P-loop; other site 444178008193 Magnesium ion binding site [ion binding]; other site 444178008194 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 444178008195 Magnesium ion binding site [ion binding]; other site 444178008196 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; cl16911 444178008197 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 444178008198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008200 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 444178008201 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 444178008202 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 444178008203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178008204 trmE is a tRNA modification GTPase; Region: trmE; cd04164 444178008205 G1 box; other site 444178008206 G1 box; other site 444178008207 GTP/Mg2+ binding site [chemical binding]; other site 444178008208 GTP/Mg2+ binding site [chemical binding]; other site 444178008209 Switch I region; other site 444178008210 Switch I region; other site 444178008211 G2 box; other site 444178008212 G2 box; other site 444178008213 Switch II region; other site 444178008214 G3 box; other site 444178008215 G4 box; other site 444178008216 G5 box; other site 444178008217 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 444178008218 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 444178008219 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 444178008220 catalytic residues [active] 444178008221 transcription termination factor Rho; Provisional; Region: rho; PRK09376 444178008222 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 444178008223 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 444178008224 RNA binding site [nucleotide binding]; other site 444178008225 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 444178008226 multimer interface [polypeptide binding]; other site 444178008227 Walker A motif; other site 444178008228 ATP binding site [chemical binding]; other site 444178008229 Walker B motif; other site 444178008230 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 444178008231 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 444178008232 substrate binding site [chemical binding]; other site 444178008233 active site 444178008234 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 444178008235 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 444178008236 active site 444178008237 dimer interface [polypeptide binding]; other site 444178008238 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 444178008239 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 444178008240 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 444178008241 shikimate binding site; other site 444178008242 NAD(P) binding site [chemical binding]; other site 444178008243 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 444178008244 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 444178008245 CoA-binding site [chemical binding]; other site 444178008246 ATP-binding [chemical binding]; other site 444178008247 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 444178008248 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 444178008249 active site 444178008250 catalytic site [active] 444178008251 substrate binding site [chemical binding]; other site 444178008252 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 444178008253 SecA binding site; other site 444178008254 Preprotein binding site; other site 444178008255 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 444178008256 Tim44-like domain; Region: Tim44; cl09208 444178008257 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 444178008258 MltA specific insert domain; Region: MltA; cl08398 444178008259 3D domain; Region: 3D; cl01439 444178008260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 444178008261 Smr domain; Region: Smr; cl02619 444178008262 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 444178008263 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 444178008264 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 444178008265 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 444178008266 Walker A motif; other site 444178008267 ATP binding site [chemical binding]; other site 444178008268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178008269 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 444178008270 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 444178008271 active site 444178008272 HslU subunit interaction site [polypeptide binding]; other site 444178008273 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 444178008274 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 444178008275 putative active site pocket [active] 444178008276 4-fold oligomerization interface [polypeptide binding]; other site 444178008277 metal binding residues [ion binding]; metal-binding site 444178008278 3-fold/trimer interface [polypeptide binding]; other site 444178008279 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 444178008280 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 444178008281 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 444178008282 putative active site [active] 444178008283 oxyanion strand; other site 444178008284 catalytic triad [active] 444178008285 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 444178008286 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 444178008287 catalytic residues [active] 444178008288 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 444178008289 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 444178008290 substrate binding site [chemical binding]; other site 444178008291 glutamase interaction surface [polypeptide binding]; other site 444178008292 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 444178008293 metal binding site [ion binding]; metal-binding site 444178008294 pantothenate kinase; Provisional; Region: PRK05439 444178008295 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 in...; Region: PanK; cd02025 444178008296 ATP-binding site [chemical binding]; other site 444178008297 CoA-binding site [chemical binding]; other site 444178008298 Mg2+-binding site [ion binding]; other site 444178008299 RF-1 domain; Region: RF-1; cl02875 444178008300 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 444178008301 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 444178008302 active site 444178008303 phosphorylation site [posttranslational modification] 444178008304 intermolecular recognition site; other site 444178008305 dimerization interface [polypeptide binding]; other site 444178008306 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 444178008307 DNA binding site [nucleotide binding] 444178008308 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 444178008309 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 444178008310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 444178008311 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 444178008312 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 444178008313 dimer interface [polypeptide binding]; other site 444178008314 phosphorylation site [posttranslational modification] 444178008315 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 444178008316 ATP binding site [chemical binding]; other site 444178008317 Mg2+ binding site [ion binding]; other site 444178008318 G-X-G motif; other site 444178008319 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 444178008320 Hpr binding site; other site 444178008321 active site 444178008322 homohexamer subunit interaction site [polypeptide binding]; other site 444178008323 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 444178008324 active pocket/dimerization site; other site 444178008325 active site 444178008326 phosphorylation site [posttranslational modification] 444178008327 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 444178008328 dimerization domain swap beta strand [polypeptide binding]; other site 444178008329 regulatory protein interface [polypeptide binding]; other site 444178008330 active site 444178008331 regulatory phosphorylation site [posttranslational modification]; other site 444178008332 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 444178008333 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 444178008334 oligomerization interface [polypeptide binding]; other site 444178008335 active site 444178008336 NAD+ binding site [chemical binding]; other site 444178008337 PAS fold; Region: PAS_7; pfam12860 444178008338 PAS fold; Region: PAS_7; pfam12860 444178008339 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 444178008340 dimer interface [polypeptide binding]; other site 444178008341 phosphorylation site [posttranslational modification] 444178008342 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 444178008343 ATP binding site [chemical binding]; other site 444178008344 Mg2+ binding site [ion binding]; other site 444178008345 G-X-G motif; other site 444178008346 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 444178008347 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444178008348 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 444178008349 Substrate binding site; other site 444178008350 metal-binding site 444178008351 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 444178008352 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 444178008353 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 444178008354 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 444178008355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178008356 Family description; Region: UvrD_C_2; cl15862 444178008357 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 444178008358 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 444178008359 catalytic residues [active] 444178008360 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 444178008361 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 444178008362 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 444178008363 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 444178008364 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 444178008365 substrate binding site [chemical binding]; other site 444178008366 active site 444178008367 catalytic residues [active] 444178008368 heterodimer interface [polypeptide binding]; other site 444178008369 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 444178008370 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 444178008371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444178008372 catalytic residue [active] 444178008373 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 444178008374 active site 444178008375 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 444178008376 putative active site [active] 444178008377 Protein of unknown function DUF45; Region: DUF45; cl00636 444178008378 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 444178008379 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 444178008380 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 444178008381 benzoate transporter; Region: benE; TIGR00843 444178008382 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 444178008383 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 444178008384 Phospholipid methyltransferase; Region: PEMT; cl00763 444178008385 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 444178008386 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 444178008387 23S rRNA binding site [nucleotide binding]; other site 444178008388 L21 binding site [polypeptide binding]; other site 444178008389 L13 binding site [polypeptide binding]; other site 444178008390 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 444178008391 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 444178008392 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 444178008393 dimer interface [polypeptide binding]; other site 444178008394 motif 1; other site 444178008395 active site 444178008396 motif 2; other site 444178008397 motif 3; other site 444178008398 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 444178008399 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 444178008400 putative tRNA-binding site [nucleotide binding]; other site 444178008401 B3/4 domain; Region: B3_4; cl11458 444178008402 tRNA synthetase B5 domain; Region: B5; cl08394 444178008403 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 444178008404 dimer interface [polypeptide binding]; other site 444178008405 motif 1; other site 444178008406 motif 3; other site 444178008407 motif 2; other site 444178008408 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 444178008409 NAD-specific glutamate dehydrogenase; Region: NAD-GH; pfam10712 444178008410 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444178008411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008412 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 444178008413 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 444178008414 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 444178008415 catalytic site [active] 444178008416 metal binding site [ion binding]; metal-binding site 444178008417 chaperone protein DnaJ; Provisional; Region: PRK10767 444178008418 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 444178008419 HSP70 interaction site [polypeptide binding]; other site 444178008420 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 444178008421 substrate binding site [polypeptide binding]; other site 444178008422 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 444178008423 Zn binding sites [ion binding]; other site 444178008424 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 444178008425 dimer interface [polypeptide binding]; other site 444178008426 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 444178008427 S-adenosylmethionine binding site [chemical binding]; other site 444178008428 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 contains two...; Region: OMP_decarboxylase_like; cd04725 444178008429 active site 444178008430 dimer interface [polypeptide binding]; other site 444178008431 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 444178008432 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 444178008433 glutathione synthetase; Provisional; Region: PRK05246 444178008434 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 444178008435 ATP-grasp domain; Region: ATP-grasp_4; cl03087 444178008436 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 444178008437 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 444178008438 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 444178008439 Walker A motif; other site 444178008440 ATP binding site [chemical binding]; other site 444178008441 Walker B motif; other site 444178008442 arginine finger; other site 444178008443 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 444178008444 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 444178008445 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 444178008446 Protein of unknown function (DUF454); Region: DUF454; cl01063 444178008447 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444178008448 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 444178008449 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 444178008450 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 444178008451 dimer interface [polypeptide binding]; other site 444178008452 conserved gate region; other site 444178008453 putative PBP binding loops; other site 444178008454 ABC-ATPase subunit interface; other site 444178008455 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 444178008456 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 444178008457 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 444178008458 dimer interface [polypeptide binding]; other site 444178008459 conserved gate region; other site 444178008460 putative PBP binding loops; other site 444178008461 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 444178008462 ABC-ATPase subunit interface; other site 444178008463 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 444178008464 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 444178008465 Walker A/P-loop; other site 444178008466 ATP binding site [chemical binding]; other site 444178008467 Q-loop/lid; other site 444178008468 ABC transporter signature motif; other site 444178008469 Walker B; other site 444178008470 D-loop; other site 444178008471 H-loop/switch region; other site 444178008472 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 444178008473 PhoU domain; Region: PhoU; pfam01895 444178008474 PhoU domain; Region: PhoU; pfam01895 444178008475 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 444178008476 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 444178008477 active site 444178008478 phosphorylation site [posttranslational modification] 444178008479 intermolecular recognition site; other site 444178008480 dimerization interface [polypeptide binding]; other site 444178008481 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 444178008482 DNA binding site [nucleotide binding] 444178008483 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 444178008484 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 444178008485 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 444178008486 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 444178008487 dimerization interface [polypeptide binding]; other site 444178008488 DPS ferroxidase diiron center [ion binding]; other site 444178008489 ion pore; other site 444178008490 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 444178008491 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 444178008492 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 444178008493 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 444178008494 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 444178008495 putative acyl-acceptor binding pocket; other site 444178008496 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 444178008497 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 444178008498 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 444178008499 FeS/SAM binding site; other site 444178008500 TRAM domain; Region: TRAM; cl01282 444178008501 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 444178008502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 444178008503 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 444178008504 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 444178008505 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 444178008506 Transporter associated domain; Region: CorC_HlyC; cl08393 444178008507 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 444178008508 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 444178008509 putative active site [active] 444178008510 catalytic triad [active] 444178008511 putative dimer interface [polypeptide binding]; other site 444178008512 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 444178008513 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 444178008514 non-specific DNA binding site [nucleotide binding]; other site 444178008515 salt bridge; other site 444178008516 sequence-specific DNA binding site [nucleotide binding]; other site 444178008517 S-adenosylmethionine synthetase; Validated; Region: PRK05250 444178008518 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 444178008519 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 444178008520 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 444178008521 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; cl16911 444178008522 ribosome maturation protein RimP; Reviewed; Region: PRK00092 444178008523 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 444178008524 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 444178008525 Sm1 motif; other site 444178008526 D1 - D2 interaction site; other site 444178008527 D3 - B interaction site; other site 444178008528 Hfq - Hfq interaction site; other site 444178008529 RNA binding pocket [nucleotide binding]; other site 444178008530 Sm2 motif; other site 444178008531 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 444178008532 NusA N-terminal domain; Region: NusA_N; pfam08529 444178008533 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 444178008534 RNA binding site [nucleotide binding]; other site 444178008535 homodimer interface [polypeptide binding]; other site 444178008536 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 444178008537 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 444178008538 G-X-X-G motif; other site 444178008539 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 444178008540 hypothetical protein; Provisional; Region: PRK09190 444178008541 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 444178008542 putative RNA binding cleft [nucleotide binding]; other site 444178008543 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 444178008544 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 444178008545 translation initiation factor IF-2; Region: IF-2; TIGR00487 444178008546 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 444178008547 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 444178008548 G1 box; other site 444178008549 putative GEF interaction site [polypeptide binding]; other site 444178008550 GTP/Mg2+ binding site [chemical binding]; other site 444178008551 Switch I region; other site 444178008552 G2 box; other site 444178008553 G3 box; other site 444178008554 Switch II region; other site 444178008555 G4 box; other site 444178008556 G5 box; other site 444178008557 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 444178008558 Translation-initiation factor 2; Region: IF-2; pfam11987 444178008559 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 444178008560 Ribosome-binding factor A; Region: RBFA; cl00542 444178008561 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 444178008562 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 444178008563 RNA binding site [nucleotide binding]; other site 444178008564 active site 444178008565 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 444178008566 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 444178008567 16S/18S rRNA binding site [nucleotide binding]; other site 444178008568 S13e-L30e interaction site [polypeptide binding]; other site 444178008569 25S rRNA binding site [nucleotide binding]; other site 444178008570 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 444178008571 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 444178008572 RNase E interface [polypeptide binding]; other site 444178008573 trimer interface [polypeptide binding]; other site 444178008574 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 444178008575 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 444178008576 RNase E interface [polypeptide binding]; other site 444178008577 trimer interface [polypeptide binding]; other site 444178008578 active site 444178008579 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 444178008580 putative nucleic acid binding region [nucleotide binding]; other site 444178008581 G-X-X-G motif; other site 444178008582 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 444178008583 RNA binding site [nucleotide binding]; other site 444178008584 domain interface; other site 444178008585 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 444178008586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008587 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 444178008588 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 444178008589 dimer interface [polypeptide binding]; other site 444178008590 active site 444178008591 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 444178008592 active site 1 [active] 444178008593 dimer interface [polypeptide binding]; other site 444178008594 active site 2 [active] 444178008595 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 444178008596 metal binding site 2 [ion binding]; metal-binding site 444178008597 putative DNA binding helix; other site 444178008598 metal binding site 1 [ion binding]; metal-binding site 444178008599 dimer interface [polypeptide binding]; other site 444178008600 structural Zn2+ binding site [ion binding]; other site 444178008601 NMT1-like family; Region: NMT1_2; cl15260 444178008602 NMT1/THI5 like; Region: NMT1; pfam09084 444178008603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 444178008604 Bacterial SH3 domain; Region: SH3_3; cl02551 444178008605 Bacterial SH3 domain; Region: SH3_3; cl02551 444178008606 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 444178008607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444178008608 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 444178008609 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; cl12031 444178008610 NlpC/P60 family; Region: NLPC_P60; cl11438 444178008611 Helix-turn-helix domains; Region: HTH; cl00088 444178008612 multifunctional aminopeptidase A; Provisional; Region: PRK00913 444178008613 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 444178008614 interface (dimer of trimers) [polypeptide binding]; other site 444178008615 Substrate-binding/catalytic site; other site 444178008616 Zn-binding sites [ion binding]; other site 444178008617 Flp/Fap pilin component; Region: Flp_Fap; cl01585 444178008618 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 444178008619 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 444178008620 DNA binding site [nucleotide binding] 444178008621 catalytic residue [active] 444178008622 H2TH interface [polypeptide binding]; other site 444178008623 putative catalytic residues [active] 444178008624 turnover-facilitating residue; other site 444178008625 intercalation triad [nucleotide binding]; other site 444178008626 8OG recognition residue [nucleotide binding]; other site 444178008627 putative reading head residues; other site 444178008628 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 444178008629 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 444178008630 enoyl-CoA hydratase; Provisional; Region: PRK05862 444178008631 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 444178008632 substrate binding site [chemical binding]; other site 444178008633 oxyanion hole (OAH) forming residues; other site 444178008634 trimer interface [polypeptide binding]; other site 444178008635 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384