-- dump date 20120504_154538 -- class Genbank::misc_feature -- table misc_feature_note -- id note 318586000001 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 318586000002 transcription termination factor Rho; Provisional; Region: rho; PRK09376 318586000003 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 318586000004 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 318586000005 RNA binding site [nucleotide binding]; other site 318586000006 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 318586000007 multimer interface [polypeptide binding]; other site 318586000008 Walker A motif; other site 318586000009 ATP binding site [chemical binding]; other site 318586000010 Walker B motif; other site 318586000011 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 318586000012 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 318586000013 trmE is a tRNA modification GTPase; Region: trmE; cd04164 318586000014 G1 box; other site 318586000015 GTP/Mg2+ binding site [chemical binding]; other site 318586000016 Switch I region; other site 318586000017 G2 box; other site 318586000018 Switch II region; other site 318586000019 G3 box; other site 318586000020 G4 box; other site 318586000021 G5 box; other site 318586000022 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 318586000023 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 318586000024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000025 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 318586000026 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 318586000027 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 318586000028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000029 ParB-like partition proteins; Region: parB_part; TIGR00180 318586000030 ParB-like nuclease domain; Region: ParBc; cl02129 318586000031 heat shock protein GrpE; Provisional; Region: PRK14141 318586000032 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 318586000033 dimer interface [polypeptide binding]; other site 318586000034 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 318586000035 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 318586000036 Helix-turn-helix domains; Region: HTH; cl00088 318586000037 ribonuclease PH; Reviewed; Region: rph; PRK00173 318586000038 Ribonuclease PH; Region: RNase_PH_bact; cd11362 318586000039 hexamer interface [polypeptide binding]; other site 318586000040 active site 318586000041 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 318586000042 active site 318586000043 dimerization interface [polypeptide binding]; other site 318586000044 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_6; cd06154 318586000045 homotrimer interaction site [polypeptide binding]; other site 318586000046 putative active site [active] 318586000047 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 318586000048 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 318586000049 FeS/SAM binding site; other site 318586000050 HemN C-terminal domain; Region: HemN_C; pfam06969 318586000051 Protein of unknown function (DUF454); Region: DUF454; cl01063 318586000052 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318586000053 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 318586000054 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 318586000055 substrate binding site [chemical binding]; other site 318586000056 catalytic Zn binding site [ion binding]; other site 318586000057 NAD binding site [chemical binding]; other site 318586000058 structural Zn binding site [ion binding]; other site 318586000059 dimer interface [polypeptide binding]; other site 318586000060 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 318586000061 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 318586000062 oligomer interface [polypeptide binding]; other site 318586000063 active site residues [active] 318586000064 putative acetyltransferase; Provisional; Region: PRK03624 318586000065 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586000066 Coenzyme A binding pocket [chemical binding]; other site 318586000067 Predicted esterase [General function prediction only]; Region: COG0627 318586000068 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 318586000069 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 318586000070 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 318586000071 Trp docking motif [polypeptide binding]; other site 318586000072 dimer interface [polypeptide binding]; other site 318586000073 active site 318586000074 small subunit binding site [polypeptide binding]; other site 318586000075 Cytochrome c; Region: Cytochrom_C; cl11414 318586000076 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 318586000077 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 318586000078 substrate binding pocket [chemical binding]; other site 318586000079 membrane-bound complex binding site; other site 318586000080 hinge residues; other site 318586000081 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 318586000082 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 318586000083 putative hydrophobic ligand binding site [chemical binding]; other site 318586000084 protein interface [polypeptide binding]; other site 318586000085 gate; other site 318586000086 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 318586000087 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 318586000088 ligand binding site [chemical binding]; other site 318586000089 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 318586000090 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 318586000091 structural tetrad; other site 318586000092 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 318586000093 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000094 Walker A/P-loop; other site 318586000095 ATP binding site [chemical binding]; other site 318586000096 Q-loop/lid; other site 318586000097 ABC transporter signature motif; other site 318586000098 Walker B; other site 318586000099 D-loop; other site 318586000100 H-loop/switch region; other site 318586000101 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586000102 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 318586000103 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 318586000104 GTP binding site; other site 318586000105 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 318586000106 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 318586000107 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000108 Walker A/P-loop; other site 318586000109 ATP binding site [chemical binding]; other site 318586000110 Q-loop/lid; other site 318586000111 ABC transporter signature motif; other site 318586000112 Walker B; other site 318586000113 D-loop; other site 318586000114 H-loop/switch region; other site 318586000115 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 318586000116 NMT1-like family; Region: NMT1_2; cl15260 318586000117 NMT1/THI5 like; Region: NMT1; pfam09084 318586000118 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 318586000119 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 318586000120 ATP binding site [chemical binding]; other site 318586000121 substrate interface [chemical binding]; other site 318586000122 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 318586000123 active site residue [active] 318586000124 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 318586000125 thiamine phosphate binding site [chemical binding]; other site 318586000126 active site 318586000127 pyrophosphate binding site [ion binding]; other site 318586000128 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 318586000129 ThiS interaction site; other site 318586000130 putative active site [active] 318586000131 tetramer interface [polypeptide binding]; other site 318586000132 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 318586000133 thiS-thiF/thiG interaction site; other site 318586000134 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 318586000135 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 318586000136 dimer interface [polypeptide binding]; other site 318586000137 substrate binding site [chemical binding]; other site 318586000138 ATP binding site [chemical binding]; other site 318586000139 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 318586000140 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 318586000141 motif II; other site 318586000142 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586000143 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 318586000144 trimer interface [polypeptide binding]; other site 318586000145 active site 318586000146 dimer interface [polypeptide binding]; other site 318586000147 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318586000148 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 318586000149 active site 318586000150 phosphorylation site [posttranslational modification] 318586000151 intermolecular recognition site; other site 318586000152 dimerization interface [polypeptide binding]; other site 318586000153 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 318586000154 DNA binding site [nucleotide binding] 318586000155 PAS fold; Region: PAS_7; pfam12860 318586000156 PAS fold; Region: PAS_4; pfam08448 318586000157 histidine kinase; Provisional; Region: PRK13557 318586000158 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 318586000159 ATP binding site [chemical binding]; other site 318586000160 Mg2+ binding site [ion binding]; other site 318586000161 G-X-G motif; other site 318586000162 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 318586000163 active site 318586000164 phosphorylation site [posttranslational modification] 318586000165 intermolecular recognition site; other site 318586000166 dimerization interface [polypeptide binding]; other site 318586000167 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318586000168 AMP-binding enzyme; Region: AMP-binding; cl15778 318586000169 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586000170 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 318586000171 Walker A/P-loop; other site 318586000172 ATP binding site [chemical binding]; other site 318586000173 Q-loop/lid; other site 318586000174 ABC transporter signature motif; other site 318586000175 Walker B; other site 318586000176 D-loop; other site 318586000177 H-loop/switch region; other site 318586000178 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 318586000179 TM-ABC transporter signature motif; other site 318586000180 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 318586000181 TM-ABC transporter signature motif; other site 318586000182 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_1; cd06334 318586000183 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586000184 putative ligand binding site [chemical binding]; other site 318586000185 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586000186 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 318586000187 Walker A/P-loop; other site 318586000188 ATP binding site [chemical binding]; other site 318586000189 Q-loop/lid; other site 318586000190 ABC transporter signature motif; other site 318586000191 Walker B; other site 318586000192 D-loop; other site 318586000193 H-loop/switch region; other site 318586000194 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 318586000195 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 318586000196 N-formylglutamate amidohydrolase; Region: FGase; cl01522 318586000197 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 318586000198 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_23; cd04682 318586000199 nudix motif; other site 318586000200 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586000201 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 318586000202 C-terminal domain interface [polypeptide binding]; other site 318586000203 GSH binding site (G-site) [chemical binding]; other site 318586000204 dimer interface [polypeptide binding]; other site 318586000205 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318586000206 N-terminal domain interface [polypeptide binding]; other site 318586000207 dimer interface [polypeptide binding]; other site 318586000208 substrate binding pocket (H-site) [chemical binding]; other site 318586000209 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 318586000210 active site 318586000211 dimer interface [polypeptide binding]; other site 318586000212 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 318586000213 Clp amino terminal domain; Region: Clp_N; pfam02861 318586000214 Clp amino terminal domain; Region: Clp_N; pfam02861 318586000215 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 318586000216 Walker A motif; other site 318586000217 ATP binding site [chemical binding]; other site 318586000218 Walker B motif; other site 318586000219 arginine finger; other site 318586000220 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 318586000221 Walker A motif; other site 318586000222 ATP binding site [chemical binding]; other site 318586000223 Walker B motif; other site 318586000224 arginine finger; other site 318586000225 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318586000226 TMAO/DMSO reductase; Reviewed; Region: PRK05363 318586000227 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 318586000228 Moco binding site; other site 318586000229 metal coordination site [ion binding]; other site 318586000230 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 318586000231 Predicted helicase [General function prediction only]; Region: COG4889 318586000232 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586000233 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 318586000234 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586000235 Integrase core domain; Region: rve; cl01316 318586000236 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 318586000237 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 318586000238 putative active site; other site 318586000239 signature motif; other site 318586000240 putative triphosphate binding site [ion binding]; other site 318586000241 CHAD domain; Region: CHAD; cl10506 318586000242 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 318586000243 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 318586000244 P-loop; other site 318586000245 Magnesium ion binding site [ion binding]; other site 318586000246 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 318586000247 Magnesium ion binding site [ion binding]; other site 318586000248 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 318586000249 putative active site [active] 318586000250 putative metal binding residues [ion binding]; other site 318586000251 signature motif; other site 318586000252 putative dimer interface [polypeptide binding]; other site 318586000253 putative phosphate binding site [ion binding]; other site 318586000254 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586000255 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586000256 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586000257 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318586000258 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 318586000259 active site 318586000260 phosphorylation site [posttranslational modification] 318586000261 intermolecular recognition site; other site 318586000262 dimerization interface [polypeptide binding]; other site 318586000263 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 318586000264 DNA binding site [nucleotide binding] 318586000265 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 318586000266 putative active site [active] 318586000267 heme pocket [chemical binding]; other site 318586000268 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 318586000269 dimer interface [polypeptide binding]; other site 318586000270 phosphorylation site [posttranslational modification] 318586000271 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 318586000272 ATP binding site [chemical binding]; other site 318586000273 Mg2+ binding site [ion binding]; other site 318586000274 G-X-G motif; other site 318586000275 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 318586000276 active site 318586000277 phosphorylation site [posttranslational modification] 318586000278 intermolecular recognition site; other site 318586000279 dimerization interface [polypeptide binding]; other site 318586000280 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318586000281 Helix-turn-helix domains; Region: HTH; cl00088 318586000282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586000283 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 318586000284 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 318586000285 ligand binding site; other site 318586000286 tetramer interface; other site 318586000287 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 318586000288 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318586000289 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 318586000290 metal binding site [ion binding]; metal-binding site 318586000291 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 318586000292 putative active site [active] 318586000293 putative substrate binding site [chemical binding]; other site 318586000294 putative cosubstrate binding site; other site 318586000295 catalytic site [active] 318586000296 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 318586000297 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 318586000298 NAD(P) binding site [chemical binding]; other site 318586000299 homodimer interface [polypeptide binding]; other site 318586000300 substrate binding site [chemical binding]; other site 318586000301 active site 318586000302 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318586000303 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 318586000304 catalytic residues [active] 318586000305 catalytic nucleophile [active] 318586000306 Presynaptic Site I dimer interface [polypeptide binding]; other site 318586000307 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318586000308 Synaptic Flat tetramer interface [polypeptide binding]; other site 318586000309 Synaptic Site I dimer interface [polypeptide binding]; other site 318586000310 DNA binding site [nucleotide binding] 318586000311 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 318586000312 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586000313 Conjugal transfer protein TraD; Region: TraD; cl05753 318586000314 Conjugal transfer protein TraD; Region: TraD; cl05753 318586000315 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 318586000316 MobA/MobL family; Region: MobA_MobL; pfam03389 318586000317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000318 Family description; Region: UvrD_C_2; cl15862 318586000319 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318586000320 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 318586000321 HicB family; Region: HicB; pfam05534 318586000322 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 318586000323 catalytic residues [active] 318586000324 catalytic nucleophile [active] 318586000325 Recombinase; Region: Recombinase; pfam07508 318586000326 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 318586000327 catalytic residues [active] 318586000328 catalytic nucleophile [active] 318586000329 Recombinase; Region: Recombinase; pfam07508 318586000330 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 318586000331 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 318586000332 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 318586000333 active site 318586000334 catalytic tetrad [active] 318586000335 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 318586000336 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318586000337 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586000338 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 318586000339 active site 318586000340 NTP binding site [chemical binding]; other site 318586000341 metal binding triad [ion binding]; metal-binding site 318586000342 TIR domain; Region: TIR_2; cl15770 318586000343 Bacterial SH3 domain; Region: SH3_3; cl02551 318586000344 hypothetical protein; Provisional; Region: PRK10396 318586000345 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 318586000346 SEC-C motif; Region: SEC-C; pfam02810 318586000347 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 318586000348 trimer interface [polypeptide binding]; other site 318586000349 active site 318586000350 substrate binding site [chemical binding]; other site 318586000351 CoA binding site [chemical binding]; other site 318586000352 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 318586000353 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 318586000354 putative acetyltransferase; Provisional; Region: PRK03624 318586000355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586000356 Coenzyme A binding pocket [chemical binding]; other site 318586000357 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 318586000358 dimer interface [polypeptide binding]; other site 318586000359 ssDNA binding site [nucleotide binding]; other site 318586000360 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318586000361 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 318586000362 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 318586000363 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 318586000364 non-specific DNA binding site [nucleotide binding]; other site 318586000365 sequence-specific DNA binding site [nucleotide binding]; other site 318586000366 salt bridge; other site 318586000367 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318586000368 Replication initiator protein A; Region: RPA; cl02339 318586000369 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 318586000370 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 318586000371 cofactor binding site; other site 318586000372 substrate interaction site [chemical binding]; other site 318586000373 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318586000374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318586000375 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318586000376 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 318586000377 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 318586000378 Protein of unknown function (DUF736); Region: DUF736; cl02303 318586000379 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 318586000380 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586000381 catalytic residue [active] 318586000382 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 318586000383 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 318586000384 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 318586000385 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 318586000386 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 318586000387 Walker A motif; other site 318586000388 ATP binding site [chemical binding]; other site 318586000389 Walker B motif; other site 318586000390 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 318586000391 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 318586000392 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 318586000393 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 318586000394 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 318586000395 VirB7 interaction site; other site 318586000396 VirB8 protein; Region: VirB8; cl01500 318586000397 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 318586000398 conjugal transfer protein TrbL; Provisional; Region: PRK13875 318586000399 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 318586000400 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 318586000401 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 318586000402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000403 Walker A motif; other site 318586000404 ATP binding site [chemical binding]; other site 318586000405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000406 Walker B; other site 318586000407 D-loop; other site 318586000408 H-loop/switch region; other site 318586000409 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 318586000410 TrbC/VIRB2 family; Region: TrbC; cl01583 318586000411 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 318586000412 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000414 Walker A motif; other site 318586000415 ATP binding site [chemical binding]; other site 318586000416 Walker B motif; other site 318586000417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586000418 Helix-turn-helix domains; Region: HTH; cl00088 318586000419 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 318586000420 dimerization interface [polypeptide binding]; other site 318586000421 substrate binding pocket [chemical binding]; other site 318586000422 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318586000423 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318586000424 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 318586000425 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318586000426 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 318586000427 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 318586000428 MltA-interacting protein MipA; Region: MipA; cl01504 318586000429 Helix-turn-helix domains; Region: HTH; cl00088 318586000430 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 318586000431 dimerization interface [polypeptide binding]; other site 318586000432 putative DNA binding site [nucleotide binding]; other site 318586000433 putative Zn2+ binding site [ion binding]; other site 318586000434 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 318586000435 Cupin domain; Region: Cupin_2; cl09118 318586000436 Cupin domain; Region: Cupin_2; cl09118 318586000437 mycothiol-dependent maleylpyruvate isomerase; Reviewed; Region: PRK09583 318586000438 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 318586000439 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586000440 Helix-turn-helix domains; Region: HTH; cl00088 318586000441 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586000442 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 318586000443 active site 318586000444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000445 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 318586000446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000447 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 318586000448 AMP-binding enzyme; Region: AMP-binding; cl15778 318586000449 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586000450 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586000451 GST_N family, Class Zeta 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_Zeta; cd03042 318586000452 maleylacetoacetate isomerase; Region: maiA; TIGR01262 318586000453 C-terminal domain interface [polypeptide binding]; other site 318586000454 GSH binding site (G-site) [chemical binding]; other site 318586000455 putative dimer interface [polypeptide binding]; other site 318586000456 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 318586000457 dimer interface [polypeptide binding]; other site 318586000458 N-terminal domain interface [polypeptide binding]; other site 318586000459 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 318586000460 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586000461 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 318586000462 putative ligand binding site [chemical binding]; other site 318586000463 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 318586000464 TM-ABC transporter signature motif; other site 318586000465 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 318586000466 TM-ABC transporter signature motif; other site 318586000467 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586000468 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 318586000469 Walker A/P-loop; other site 318586000470 ATP binding site [chemical binding]; other site 318586000471 Q-loop/lid; other site 318586000472 ABC transporter signature motif; other site 318586000473 Walker B; other site 318586000474 D-loop; other site 318586000475 H-loop/switch region; other site 318586000476 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586000477 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 318586000478 Walker A/P-loop; other site 318586000479 ATP binding site [chemical binding]; other site 318586000480 Q-loop/lid; other site 318586000481 ABC transporter signature motif; other site 318586000482 Walker B; other site 318586000483 D-loop; other site 318586000484 H-loop/switch region; other site 318586000485 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586000486 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 318586000487 NAD(P) binding site [chemical binding]; other site 318586000488 catalytic residues [active] 318586000489 choline dehydrogenase; Validated; Region: PRK02106 318586000490 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586000491 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586000492 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 318586000493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000494 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 318586000495 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 318586000496 metal binding site [ion binding]; metal-binding site 318586000497 putative dimer interface [polypeptide binding]; other site 318586000498 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318586000499 Helix-turn-helix domains; Region: HTH; cl00088 318586000500 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586000501 Helix-turn-helix domains; Region: HTH; cl00088 318586000502 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586000503 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586000504 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586000505 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586000506 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 318586000507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586000508 active site 318586000509 metal binding site [ion binding]; metal-binding site 318586000510 classical (c) SDRs; Region: SDR_c; cd05233 318586000511 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 318586000512 NAD(P) binding site [chemical binding]; other site 318586000513 active site 318586000514 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586000515 Uncharacterized conserved protein [Function unknown]; Region: COG3777 318586000516 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 318586000517 active site 2 [active] 318586000518 active site 1 [active] 318586000519 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586000520 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586000521 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586000522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000523 NAD(P) binding site [chemical binding]; other site 318586000524 active site 318586000525 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 318586000526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000527 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586000528 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586000529 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586000530 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586000531 active site 318586000532 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 318586000533 substrate binding site [chemical binding]; other site 318586000534 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 318586000535 oxyanion hole (OAH) forming residues; other site 318586000536 trimer interface [polypeptide binding]; other site 318586000537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000538 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586000539 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586000540 Flavin Reductases; Region: FlaRed; cl00801 318586000541 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 318586000542 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586000543 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 318586000544 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 318586000545 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586000546 classical (c) SDRs; Region: SDR_c; cd05233 318586000547 NAD(P) binding site [chemical binding]; other site 318586000548 active site 318586000549 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586000550 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 318586000551 active site 1 [active] 318586000552 dimer interface [polypeptide binding]; other site 318586000553 hexamer interface [polypeptide binding]; other site 318586000554 active site 2 [active] 318586000555 Helix-turn-helix domains; Region: HTH; cl00088 318586000556 LysR family transcriptional regulator; Provisional; Region: PRK14997 318586000557 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 318586000558 putative effector binding pocket; other site 318586000559 putative dimerization interface [polypeptide binding]; other site 318586000560 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 318586000561 DNA binding residues [nucleotide binding] 318586000562 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 318586000563 dimer interface [polypeptide binding]; other site 318586000564 putative metal binding site [ion binding]; other site 318586000565 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 318586000566 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 318586000567 metal-binding site [ion binding] 318586000568 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318586000569 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586000570 Phospholipid methyltransferase; Region: PEMT; cl00763 318586000571 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 318586000572 Membrane transport protein; Region: Mem_trans; cl09117 318586000573 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 318586000574 ArsC family; Region: ArsC; pfam03960 318586000575 catalytic residues [active] 318586000576 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318586000577 active site 318586000578 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 318586000579 dimerization interface [polypeptide binding]; other site 318586000580 putative DNA binding site [nucleotide binding]; other site 318586000581 putative Zn2+ binding site [ion binding]; other site 318586000582 Helix-turn-helix domains; Region: HTH; cl00088 318586000583 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 318586000584 Flavin Reductases; Region: FlaRed; cl00801 318586000585 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586000586 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 318586000587 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 318586000588 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 318586000589 active site 2 [active] 318586000590 active site 1 [active] 318586000591 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586000592 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586000593 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586000594 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318586000595 tetramerization interface [polypeptide binding]; other site 318586000596 NAD(P) binding site [chemical binding]; other site 318586000597 catalytic residues [active] 318586000598 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 318586000599 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 318586000600 Walker A motif; other site 318586000601 ATP binding site [chemical binding]; other site 318586000602 Walker B motif; other site 318586000603 Helix-turn-helix domains; Region: HTH; cl00088 318586000604 Flavin Reductases; Region: FlaRed; cl00801 318586000605 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586000606 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 318586000607 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 318586000608 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 318586000609 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 318586000610 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586000611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586000612 Helix-turn-helix domains; Region: HTH; cl00088 318586000613 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 318586000614 putative effector binding pocket; other site 318586000615 putative dimerization interface [polypeptide binding]; other site 318586000616 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586000617 Helix-turn-helix domains; Region: HTH; cl00088 318586000618 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 318586000619 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 318586000620 Fusaric acid resistance protein family; Region: FUSC; pfam04632 318586000621 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 318586000622 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 318586000623 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 318586000624 Walker A/P-loop; other site 318586000625 ATP binding site [chemical binding]; other site 318586000626 Q-loop/lid; other site 318586000627 ABC transporter signature motif; other site 318586000628 Walker B; other site 318586000629 D-loop; other site 318586000630 H-loop/switch region; other site 318586000631 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586000632 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 318586000633 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 318586000634 Walker A/P-loop; other site 318586000635 ATP binding site [chemical binding]; other site 318586000636 Q-loop/lid; other site 318586000637 ABC transporter signature motif; other site 318586000638 Walker B; other site 318586000639 D-loop; other site 318586000640 H-loop/switch region; other site 318586000641 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586000642 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 318586000643 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 318586000644 dimer interface [polypeptide binding]; other site 318586000645 conserved gate region; other site 318586000646 putative PBP binding loops; other site 318586000647 ABC-ATPase subunit interface; other site 318586000648 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586000649 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 318586000650 dimer interface [polypeptide binding]; other site 318586000651 conserved gate region; other site 318586000652 ABC-ATPase subunit interface; other site 318586000653 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_1; cd08508 318586000654 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586000655 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586000656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586000657 DNA-binding site [nucleotide binding]; DNA binding site 318586000658 FCD domain; Region: FCD; cl11656 318586000659 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 318586000660 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 318586000661 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate; Region: HHD; cd08191 318586000662 putative active site [active] 318586000663 metal binding site [ion binding]; metal-binding site 318586000664 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586000665 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318586000666 tetramerization interface [polypeptide binding]; other site 318586000667 NAD(P) binding site [chemical binding]; other site 318586000668 catalytic residues [active] 318586000669 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 318586000670 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 318586000671 active site pocket [active] 318586000672 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586000673 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 318586000674 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 318586000675 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 318586000676 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 318586000677 ligand binding site [chemical binding]; other site 318586000678 dimerization interface [polypeptide binding]; other site 318586000679 zinc binding site [ion binding]; other site 318586000680 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 318586000681 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 318586000682 Walker A/P-loop; other site 318586000683 ATP binding site [chemical binding]; other site 318586000684 Q-loop/lid; other site 318586000685 ABC transporter signature motif; other site 318586000686 Walker B; other site 318586000687 D-loop; other site 318586000688 H-loop/switch region; other site 318586000689 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 318586000690 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 318586000691 TM-ABC transporter signature motif; other site 318586000692 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 318586000693 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 318586000694 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 318586000695 putative active site [active] 318586000696 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318586000697 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 318586000698 substrate binding site [chemical binding]; other site 318586000699 dimer interface [polypeptide binding]; other site 318586000700 ATP binding site [chemical binding]; other site 318586000701 Domain of unknown function (DUF4326); Region: DUF4326; pfam14216 318586000702 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 318586000703 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 318586000704 HNH endonuclease; Region: HNH_3; pfam13392 318586000705 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 318586000706 DNA-binding interface [nucleotide binding]; DNA binding site 318586000707 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 318586000708 cofactor binding site; other site 318586000709 DNA binding site [nucleotide binding] 318586000710 substrate interaction site [chemical binding]; other site 318586000711 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 318586000712 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 318586000713 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 318586000714 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 318586000715 non-specific DNA binding site [nucleotide binding]; other site 318586000716 salt bridge; other site 318586000717 sequence-specific DNA binding site [nucleotide binding]; other site 318586000718 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 318586000719 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318586000720 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 318586000721 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 318586000722 Putative phage tail protein; Region: Phage-tail_3; pfam13550 318586000723 NlpC/P60 family; Region: NLPC_P60; cl11438 318586000724 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 318586000725 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 318586000726 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 318586000727 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 318586000728 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 318586000729 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 318586000730 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; cl15777 318586000731 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 318586000732 benzoate transport; Region: 2A0115; TIGR00895 318586000733 putative substrate translocation pore; other site 318586000734 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 318586000735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586000736 DNA-binding site [nucleotide binding]; DNA binding site 318586000737 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 318586000738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586000739 homodimer interface [polypeptide binding]; other site 318586000740 catalytic residue [active] 318586000741 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 318586000742 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586000743 Walker A/P-loop; other site 318586000744 ATP binding site [chemical binding]; other site 318586000745 Q-loop/lid; other site 318586000746 ABC transporter signature motif; other site 318586000747 Walker B; other site 318586000748 D-loop; other site 318586000749 H-loop/switch region; other site 318586000750 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 318586000751 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 318586000752 substrate binding pocket [chemical binding]; other site 318586000753 membrane-bound complex binding site; other site 318586000754 hinge residues; other site 318586000755 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586000756 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 318586000757 dimer interface [polypeptide binding]; other site 318586000758 conserved gate region; other site 318586000759 putative PBP binding loops; other site 318586000760 ABC-ATPase subunit interface; other site 318586000761 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586000762 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 318586000763 dimer interface [polypeptide binding]; other site 318586000764 conserved gate region; other site 318586000765 putative PBP binding loops; other site 318586000766 ABC-ATPase subunit interface; other site 318586000767 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318586000768 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 318586000769 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 318586000770 tetramer interface [polypeptide binding]; other site 318586000771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586000772 catalytic residue [active] 318586000773 ectoine utilization protein EutC; Validated; Region: PRK08291 318586000774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000775 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 318586000776 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318586000777 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 318586000778 active site 318586000779 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 318586000780 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 318586000781 putative active site [active] 318586000782 Zn binding site [ion binding]; other site 318586000783 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586000784 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318586000785 tetramerization interface [polypeptide binding]; other site 318586000786 NAD(P) binding site [chemical binding]; other site 318586000787 catalytic residues [active] 318586000788 hypothetical protein; Provisional; Region: PRK07482 318586000789 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 318586000790 inhibitor-cofactor binding pocket; inhibition site 318586000791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586000792 catalytic residue [active] 318586000793 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 318586000794 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 318586000795 putative NAD(P) binding site [chemical binding]; other site 318586000796 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 318586000797 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586000798 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586000799 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 318586000800 Hint domain; Region: Hint_2; pfam13403 318586000801 Helix-turn-helix domains; Region: HTH; cl00088 318586000802 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586000803 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 318586000804 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 318586000805 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 318586000806 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 318586000807 Walker A/P-loop; other site 318586000808 ATP binding site [chemical binding]; other site 318586000809 Q-loop/lid; other site 318586000810 ABC transporter signature motif; other site 318586000811 Walker B; other site 318586000812 D-loop; other site 318586000813 H-loop/switch region; other site 318586000814 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 318586000815 ABC-ATPase subunit interface; other site 318586000816 dimer interface [polypeptide binding]; other site 318586000817 putative PBP binding regions; other site 318586000818 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 318586000819 ABC-ATPase subunit interface; other site 318586000820 dimer interface [polypeptide binding]; other site 318586000821 putative PBP binding regions; other site 318586000822 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 318586000823 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 318586000824 putative ligand binding residues [chemical binding]; other site 318586000825 selenocysteine synthase; Provisional; Region: PRK04311 318586000826 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 318586000827 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 318586000828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586000829 Helix-turn-helix domains; Region: HTH; cl00088 318586000830 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 318586000831 dimerization interface [polypeptide binding]; other site 318586000832 Predicted membrane protein [Function unknown]; Region: COG4125 318586000833 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 318586000834 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 318586000835 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318586000836 Helix-turn-helix domains; Region: HTH; cl00088 318586000837 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 318586000838 dimerization interface [polypeptide binding]; other site 318586000839 substrate binding pocket [chemical binding]; other site 318586000840 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 318586000841 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 318586000842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 318586000843 NMT1-like family; Region: NMT1_2; cl15260 318586000844 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 318586000845 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 318586000846 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 318586000847 active site 318586000848 phosphorylation site [posttranslational modification] 318586000849 intermolecular recognition site; other site 318586000850 dimerization interface [polypeptide binding]; other site 318586000851 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 318586000852 DNA binding site [nucleotide binding] 318586000853 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 318586000854 sensor protein QseC; Provisional; Region: PRK10337 318586000855 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 318586000856 Integral membrane protein TerC family; Region: TerC; cl10468 318586000857 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 318586000858 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 318586000859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586000861 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 318586000862 NAD(P) binding site [chemical binding]; other site 318586000863 active site 318586000864 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 318586000865 active site 318586000866 HPP family; Region: HPP; pfam04982 318586000867 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 318586000868 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]; Region: COG3620 318586000869 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 318586000870 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586000871 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586000872 DNA-binding site [nucleotide binding]; DNA binding site 318586000873 FCD domain; Region: FCD; cl11656 318586000874 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 318586000875 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 318586000876 putative active site [active] 318586000877 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 318586000878 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 318586000879 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 318586000880 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 318586000881 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 318586000882 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318586000883 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586000884 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 318586000885 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 318586000886 carboxyltransferase (CT) interaction site; other site 318586000887 biotinylation site [posttranslational modification]; other site 318586000888 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 318586000889 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 318586000890 HutD; Region: HutD; cl01532 318586000891 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 318586000892 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586000893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586000894 Helix-turn-helix domains; Region: HTH; cl00088 318586000895 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 318586000896 putative effector binding pocket; other site 318586000897 dimerization interface [polypeptide binding]; other site 318586000898 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 318586000899 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586000900 Zn binding site [ion binding]; other site 318586000901 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 318586000902 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586000903 Zn binding site [ion binding]; other site 318586000904 Protein of unknown function (DUF419); Region: DUF419; cl15265 318586000905 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586000906 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 318586000907 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586000908 Zn binding site [ion binding]; other site 318586000909 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 318586000910 Zn binding site [ion binding]; other site 318586000911 Predicted esterase [General function prediction only]; Region: COG0400 318586000912 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 318586000913 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 318586000914 glutathionine S-transferase; Provisional; Region: PRK10542 318586000915 C-terminal domain interface [polypeptide binding]; other site 318586000916 GSH binding site (G-site) [chemical binding]; other site 318586000917 dimer interface [polypeptide binding]; other site 318586000918 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 318586000919 dimer interface [polypeptide binding]; other site 318586000920 N-terminal domain interface [polypeptide binding]; other site 318586000921 substrate binding pocket (H-site) [chemical binding]; other site 318586000922 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 318586000923 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 318586000924 substrate binding site [chemical binding]; other site 318586000925 active site 318586000926 catalytic residues [active] 318586000927 heterodimer interface [polypeptide binding]; other site 318586000928 GTP-binding protein YchF; Reviewed; Region: PRK09601 318586000929 YchF GTPase; Region: YchF; cd01900 318586000930 G1 box; other site 318586000931 GTP/Mg2+ binding site [chemical binding]; other site 318586000932 Switch I region; other site 318586000933 G2 box; other site 318586000934 Switch II region; other site 318586000935 G3 box; other site 318586000936 G4 box; other site 318586000937 G5 box; other site 318586000938 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 318586000939 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 318586000940 active site 318586000941 catalytic residues [active] 318586000942 DNA binding site [nucleotide binding] 318586000943 Int/Topo IB signature motif; other site 318586000944 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 318586000945 DNA polymerase III subunit beta; Validated; Region: PRK05643 318586000946 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 318586000947 putative DNA binding surface [nucleotide binding]; other site 318586000948 dimer interface [polypeptide binding]; other site 318586000949 beta-clamp/clamp loader binding surface; other site 318586000950 beta-clamp/translesion DNA polymerase binding surface; other site 318586000951 CHC2 zinc finger; Region: zf-CHC2; cl15369 318586000952 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 318586000953 D5 N terminal like; Region: D5_N; cl07360 318586000954 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 318586000955 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 318586000956 Helix-turn-helix domains; Region: HTH; cl00088 318586000957 DNA-binding interface [nucleotide binding]; DNA binding site 318586000958 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 318586000959 Phage Terminase; Region: Terminase_1; pfam03354 318586000960 Phage portal protein; Region: Phage_portal; pfam04860 318586000961 Phage-related protein [Function unknown]; Region: COG4695; cl01923 318586000962 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 318586000963 oligomer interface [polypeptide binding]; other site 318586000964 active site residues [active] 318586000965 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 318586000966 Phage capsid family; Region: Phage_capsid; pfam05065 318586000967 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 318586000968 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 318586000969 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 318586000970 Phage major tail protein 2; Region: Phage_tail_2; cl11463 318586000971 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 318586000972 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 318586000973 Phage-related protein, tail component [Function unknown]; Region: COG4733 318586000974 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; cl02712 318586000975 substrate binding site [chemical binding]; other site 318586000976 CheD chemotactic sensory transduction; Region: CheD; cl00810 318586000977 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 318586000978 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 318586000979 catalytic residues [active] 318586000980 catalytic nucleophile [active] 318586000981 Presynaptic Site I dimer interface [polypeptide binding]; other site 318586000982 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318586000983 Synaptic Flat tetramer interface [polypeptide binding]; other site 318586000984 Synaptic Site I dimer interface [polypeptide binding]; other site 318586000985 DNA binding site [nucleotide binding] 318586000986 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 318586000987 Protein of unknown function (DUF983); Region: DUF983; cl02211 318586000988 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 318586000989 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 318586000990 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 318586000991 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 318586000992 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 318586000993 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 318586000994 FeS/SAM binding site; other site 318586000995 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 318586000996 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 318586000997 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 318586000998 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 318586000999 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 318586001000 substrate binding pocket [chemical binding]; other site 318586001001 chain length determination region; other site 318586001002 substrate-Mg2+ binding site; other site 318586001003 catalytic residues [active] 318586001004 aspartate-rich region 1; other site 318586001005 active site lid residues [active] 318586001006 aspartate-rich region 2; other site 318586001007 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 318586001008 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 318586001009 TPP-binding site; other site 318586001010 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 318586001011 PYR/PP interface [polypeptide binding]; other site 318586001012 dimer interface [polypeptide binding]; other site 318586001013 TPP binding site [chemical binding]; other site 318586001014 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318586001015 Bacterial SH3 domain; Region: SH3_3; cl02551 318586001016 Predicted membrane protein [Function unknown]; Region: COG3650 318586001017 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 318586001018 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 318586001019 putative NAD(P) binding site [chemical binding]; other site 318586001020 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586001021 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 318586001022 AMP nucleosidase; Provisional; Region: PRK08292 318586001023 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 318586001024 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 318586001025 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 318586001026 IHF dimer interface [polypeptide binding]; other site 318586001027 IHF - DNA interface [nucleotide binding]; other site 318586001028 EamA-like transporter family; Region: EamA; cl01037 318586001029 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318586001030 EamA-like transporter family; Region: EamA; cl01037 318586001031 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586001032 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586001033 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 318586001034 dimer interface [polypeptide binding]; other site 318586001035 N-terminal domain interface [polypeptide binding]; other site 318586001036 putative substrate binding pocket (H-site) [chemical binding]; other site 318586001037 Helix-turn-helix domains; Region: HTH; cl00088 318586001038 WYL domain; Region: WYL; cl14852 318586001039 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 318586001040 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586001041 catalytic residue [active] 318586001042 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 318586001043 Helix-turn-helix domains; Region: HTH; cl00088 318586001044 AsnC family; Region: AsnC_trans_reg; pfam01037 318586001045 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 318586001046 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586001047 ATP-dependent DNA ligase; Validated; Region: PRK09247 318586001048 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 318586001049 active site 318586001050 DNA binding site [nucleotide binding] 318586001051 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 318586001052 DNA binding site [nucleotide binding] 318586001053 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 318586001054 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 318586001055 ATP binding site [chemical binding]; other site 318586001056 putative Mg++ binding site [ion binding]; other site 318586001057 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 318586001058 nucleotide binding region [chemical binding]; other site 318586001059 ATP-binding site [chemical binding]; other site 318586001060 DEAD/H associated; Region: DEAD_assoc; pfam08494 318586001061 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 318586001062 putative active site [active] 318586001063 putative metal binding site [ion binding]; other site 318586001064 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 318586001065 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 318586001066 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 318586001067 Mg2+ binding site [ion binding]; other site 318586001068 G-X-G motif; other site 318586001069 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 318586001070 anchoring element; other site 318586001071 dimer interface [polypeptide binding]; other site 318586001072 ATP binding site [chemical binding]; other site 318586001073 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 318586001074 active site 318586001075 putative metal-binding site [ion binding]; other site 318586001076 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 318586001077 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 318586001078 GTPase Era; Reviewed; Region: era; PRK00089 318586001079 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 318586001080 G1 box; other site 318586001081 GTP/Mg2+ binding site [chemical binding]; other site 318586001082 Switch I region; other site 318586001083 G2 box; other site 318586001084 Switch II region; other site 318586001085 G3 box; other site 318586001086 G4 box; other site 318586001087 G5 box; other site 318586001088 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 318586001089 ribonuclease III; Reviewed; Region: rnc; PRK00102 318586001090 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 318586001091 dimerization interface [polypeptide binding]; other site 318586001092 active site 318586001093 metal binding site [ion binding]; metal-binding site 318586001094 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 318586001095 dsRNA binding site [nucleotide binding]; other site 318586001096 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 318586001097 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 318586001098 Catalytic site [active] 318586001099 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 318586001100 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 318586001101 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 318586001102 active site 318586001103 hydrophilic channel; other site 318586001104 dimerization interface [polypeptide binding]; other site 318586001105 catalytic residues [active] 318586001106 active site lid [active] 318586001107 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 318586001108 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 318586001109 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 318586001110 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 318586001111 binding surface 318586001112 TPR motif; other site 318586001113 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 318586001114 binding surface 318586001115 TPR motif; other site 318586001116 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 318586001117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586001118 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 318586001119 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 318586001120 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 318586001121 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318586001122 AzlC protein; Region: AzlC; cl00570 318586001123 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 318586001124 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 318586001125 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586001126 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586001127 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586001128 active site 318586001129 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318586001130 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318586001131 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 318586001132 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 318586001133 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 318586001134 Fe-S cluster binding site [ion binding]; other site 318586001135 active site 318586001136 tartrate dehydrogenase; Provisional; Region: PRK08194 318586001137 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 318586001138 EamA-like transporter family; Region: EamA; cl01037 318586001139 Domain of unknown function (DUF955); Region: DUF955; cl01076 318586001140 Beta protein; Region: Beta_protein; pfam14350 318586001141 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 318586001142 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318586001143 CHC2 zinc finger; Region: zf-CHC2; cl15369 318586001144 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 318586001145 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 318586001146 active site 318586001147 metal binding site [ion binding]; metal-binding site 318586001148 interdomain interaction site; other site 318586001149 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 318586001150 putative active site [active] 318586001151 putative NTP binding site [chemical binding]; other site 318586001152 putative nucleic acid binding site [nucleotide binding]; other site 318586001153 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 318586001154 active site 318586001155 catalytic triad [active] 318586001156 dimer interface [polypeptide binding]; other site 318586001157 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 318586001158 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318586001159 active site 318586001160 catalytic site [active] 318586001161 substrate binding site [chemical binding]; other site 318586001162 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 318586001163 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 318586001164 non-specific DNA binding site [nucleotide binding]; other site 318586001165 salt bridge; other site 318586001166 sequence-specific DNA binding site [nucleotide binding]; other site 318586001167 Integrase core domain; Region: rve; cl01316 318586001168 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586001169 AAA domain; Region: AAA_22; pfam13401 318586001170 TniQ; Region: TniQ; pfam06527 318586001171 Integrase core domain; Region: rve; cl01316 318586001172 transposase; Validated; Region: PRK08181 318586001173 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 318586001174 Walker A motif; other site 318586001175 ATP binding site [chemical binding]; other site 318586001176 Recombinase; Region: Recombinase; pfam07508 318586001177 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318586001178 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318586001179 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318586001180 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586001181 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586001182 Walker A/P-loop; other site 318586001183 ATP binding site [chemical binding]; other site 318586001184 Q-loop/lid; other site 318586001185 ABC transporter signature motif; other site 318586001186 Walker B; other site 318586001187 D-loop; other site 318586001188 H-loop/switch region; other site 318586001189 TOBE domain; Region: TOBE_2; cl01440 318586001190 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586001191 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 318586001192 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 318586001193 dimer interface [polypeptide binding]; other site 318586001194 conserved gate region; other site 318586001195 putative PBP binding loops; other site 318586001196 ABC-ATPase subunit interface; other site 318586001197 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 318586001198 dimer interface [polypeptide binding]; other site 318586001199 conserved gate region; other site 318586001200 putative PBP binding loops; other site 318586001201 ABC-ATPase subunit interface; other site 318586001202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586001203 DNA-binding site [nucleotide binding]; DNA binding site 318586001204 FCD domain; Region: FCD; cl11656 318586001205 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 318586001206 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 318586001207 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 318586001208 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 318586001209 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 318586001210 short chain dehydrogenase; Provisional; Region: PRK12829 318586001211 classical (c) SDRs; Region: SDR_c; cd05233 318586001212 NAD(P) binding site [chemical binding]; other site 318586001213 active site 318586001214 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 318586001215 active site 318586001216 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 318586001217 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 318586001218 non-specific DNA binding site [nucleotide binding]; other site 318586001219 salt bridge; other site 318586001220 sequence-specific DNA binding site [nucleotide binding]; other site 318586001221 Cupin domain; Region: Cupin_2; cl09118 318586001222 Alpha/beta hydrolase of unknown function (DUF1100); Region: DUF1100; pfam06500 318586001223 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 318586001224 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586001225 classical (c) SDRs; Region: SDR_c; cd05233 318586001226 NAD(P) binding site [chemical binding]; other site 318586001227 active site 318586001228 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 318586001229 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 318586001230 putative substrate translocation pore; other site 318586001231 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 318586001232 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 318586001233 oligomeric interface; other site 318586001234 putative active site [active] 318586001235 homodimer interface [polypeptide binding]; other site 318586001236 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 318586001237 Predicted transcriptional regulator [Transcription]; Region: COG4190 318586001238 Helix-turn-helix domains; Region: HTH; cl00088 318586001239 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 318586001240 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 318586001241 active site 318586001242 dimer interface [polypeptide binding]; other site 318586001243 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 318586001244 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 318586001245 active site 318586001246 FMN binding site [chemical binding]; other site 318586001247 substrate binding site [chemical binding]; other site 318586001248 3Fe-4S cluster binding site [ion binding]; other site 318586001249 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 318586001250 domain interface; other site 318586001251 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 318586001252 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586001253 Bacitracin resistance protein BacA; Region: BacA; cl00858 318586001254 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 318586001255 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 318586001256 putative NAD(P) binding site [chemical binding]; other site 318586001257 active site 318586001258 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 318586001259 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586001260 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 318586001261 nudix motif; other site 318586001262 Response regulator receiver domain; Region: Response_reg; pfam00072 318586001263 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 318586001264 active site 318586001265 phosphorylation site [posttranslational modification] 318586001266 intermolecular recognition site; other site 318586001267 dimerization interface [polypeptide binding]; other site 318586001268 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 318586001269 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 318586001270 threonine dehydratase; Validated; Region: PRK08639 318586001271 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 318586001272 tetramer interface [polypeptide binding]; other site 318586001273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586001274 catalytic residue [active] 318586001275 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 318586001276 putative Ile/Val binding site [chemical binding]; other site 318586001277 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 318586001278 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 318586001279 ANP binding site [chemical binding]; other site 318586001280 Substrate Binding Site II [chemical binding]; other site 318586001281 Substrate Binding Site I [chemical binding]; other site 318586001282 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 318586001283 dimer interface [polypeptide binding]; other site 318586001284 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 318586001285 MPT binding site; other site 318586001286 trimer interface [polypeptide binding]; other site 318586001287 uridine kinase; Validated; Region: PRK06696 318586001288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586001289 active site 318586001290 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586001291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586001292 Walker A/P-loop; other site 318586001293 ATP binding site [chemical binding]; other site 318586001294 Q-loop/lid; other site 318586001295 ABC transporter signature motif; other site 318586001296 Walker B; other site 318586001297 D-loop; other site 318586001298 H-loop/switch region; other site 318586001299 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 318586001300 TM-ABC transporter signature motif; other site 318586001301 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 318586001302 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 318586001303 ligand binding site [chemical binding]; other site 318586001304 Helix-turn-helix domains; Region: HTH; cl00088 318586001305 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 318586001306 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 318586001307 chaperone protein DnaJ; Provisional; Region: PRK14299 318586001308 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 318586001309 HSP70 interaction site [polypeptide binding]; other site 318586001310 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 318586001311 substrate binding site [polypeptide binding]; other site 318586001312 dimer interface [polypeptide binding]; other site 318586001313 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 318586001314 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 318586001315 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 318586001316 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 318586001317 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 318586001318 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 318586001319 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 318586001320 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 318586001321 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 318586001322 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 318586001323 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 318586001324 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 318586001325 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 318586001326 Protein of unknown function (DUF461); Region: DUF461; cl01071 318586001327 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 318586001328 active site 318586001329 catalytic triad [active] 318586001330 oxyanion hole [active] 318586001331 switch loop; other site 318586001332 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 318586001333 metal-binding site [ion binding] 318586001334 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318586001335 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 318586001336 metal-binding site [ion binding] 318586001337 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318586001338 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586001339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 318586001340 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586001341 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 318586001342 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 318586001343 active site residue [active] 318586001344 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 318586001345 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 318586001346 TM-ABC transporter signature motif; other site 318586001347 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 318586001348 TM-ABC transporter signature motif; other site 318586001349 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 318586001350 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 318586001351 Walker A/P-loop; other site 318586001352 ATP binding site [chemical binding]; other site 318586001353 Q-loop/lid; other site 318586001354 ABC transporter signature motif; other site 318586001355 Walker B; other site 318586001356 D-loop; other site 318586001357 H-loop/switch region; other site 318586001358 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 318586001359 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 318586001360 ligand binding site [chemical binding]; other site 318586001361 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 318586001362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586001363 Coenzyme A binding pocket [chemical binding]; other site 318586001364 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 318586001365 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 318586001366 NifU-like domain; Region: NifU; cl00484 318586001367 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 318586001368 Ligand Binding Site [chemical binding]; other site 318586001369 Bacterial sugar transferase; Region: Bac_transf; cl00939 318586001370 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 318586001371 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 318586001372 dimerization interface 3.5A [polypeptide binding]; other site 318586001373 active site 318586001374 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 318586001375 Cation transport protein; Region: TrkH; cl10514 318586001376 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318586001377 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 318586001378 dimer interface [polypeptide binding]; other site 318586001379 motif 1; other site 318586001380 active site 318586001381 motif 2; other site 318586001382 motif 3; other site 318586001383 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 318586001384 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 318586001385 pyruvate phosphate dikinase; Provisional; Region: PRK09279 318586001386 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 318586001387 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 318586001388 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 318586001389 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 318586001390 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 318586001391 active site 318586001392 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 318586001393 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 318586001394 dihydropteroate synthase; Region: DHPS; TIGR01496 318586001395 substrate binding pocket [chemical binding]; other site 318586001396 dimer interface [polypeptide binding]; other site 318586001397 inhibitor binding site; inhibition site 318586001398 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 318586001399 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 318586001400 active site 318586001401 substrate binding site [chemical binding]; other site 318586001402 metal binding site [ion binding]; metal-binding site 318586001403 salicylate hydroxylase; Provisional; Region: PRK06475 318586001404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586001405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586001406 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318586001407 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 318586001408 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 318586001409 Walker A motif; other site 318586001410 ATP binding site [chemical binding]; other site 318586001411 Walker B motif; other site 318586001412 arginine finger; other site 318586001413 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318586001414 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586001415 Coenzyme A binding pocket [chemical binding]; other site 318586001416 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 318586001417 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586001418 catalytic residue [active] 318586001419 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 318586001420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586001421 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586001422 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318586001423 MAPEG family; Region: MAPEG; cl09190 318586001424 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 318586001425 E3 interaction surface; other site 318586001426 lipoyl attachment site [posttranslational modification]; other site 318586001427 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 318586001428 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 318586001429 E3 interaction surface; other site 318586001430 lipoyl attachment site [posttranslational modification]; other site 318586001431 e3 binding domain; Region: E3_binding; pfam02817 318586001432 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 318586001433 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 318586001434 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 318586001435 TPP-binding site [chemical binding]; other site 318586001436 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 318586001437 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 318586001438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586001439 CoA-ligase; Region: Ligase_CoA; cl02894 318586001440 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 318586001441 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586001442 CoA-ligase; Region: Ligase_CoA; cl02894 318586001443 malate dehydrogenase; Reviewed; Region: PRK06223 318586001444 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 318586001445 NAD(P) binding site [chemical binding]; other site 318586001446 dimer interface [polypeptide binding]; other site 318586001447 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318586001448 substrate binding site [chemical binding]; other site 318586001449 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318586001450 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 318586001451 Phospholipid methyltransferase; Region: PEMT; cl00763 318586001452 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 318586001453 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 318586001454 putative active site [active] 318586001455 putative catalytic site [active] 318586001456 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 318586001457 putative active site [active] 318586001458 putative catalytic site [active] 318586001459 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 318586001460 Iron-sulfur protein interface; other site 318586001461 proximal quinone binding site [chemical binding]; other site 318586001462 SdhD (CybS) interface [polypeptide binding]; other site 318586001463 proximal heme binding site [chemical binding]; other site 318586001464 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 318586001465 putative SdhC subunit interface [polypeptide binding]; other site 318586001466 putative proximal heme binding site [chemical binding]; other site 318586001467 putative Iron-sulfur protein interface [polypeptide binding]; other site 318586001468 putative proximal quinone binding site; other site 318586001469 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 318586001470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586001471 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318586001472 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 318586001473 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 318586001474 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 318586001475 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586001476 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 318586001477 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 318586001478 Amidase; Region: Amidase; cl11426 318586001479 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 318586001480 amidase catalytic site [active] 318586001481 Zn binding residues [ion binding]; other site 318586001482 substrate binding site [chemical binding]; other site 318586001483 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 318586001484 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 318586001485 Domain of unknown function DUF59; Region: DUF59; cl00941 318586001486 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 318586001487 Walker A motif; other site 318586001488 MraZ protein; Region: MraZ; pfam02381 318586001489 MraZ protein; Region: MraZ; pfam02381 318586001490 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 318586001491 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 318586001492 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 318586001493 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 318586001494 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 318586001495 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586001496 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 318586001497 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318586001498 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318586001499 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318586001500 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 318586001501 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318586001502 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318586001503 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318586001504 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 318586001505 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 318586001506 Mg++ binding site [ion binding]; other site 318586001507 putative catalytic motif [active] 318586001508 putative substrate binding site [chemical binding]; other site 318586001509 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 318586001510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318586001511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318586001512 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 318586001513 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA proteins; Region: TDT_TehA_like; cd09322 318586001514 gating phenylalanine in ion channel; other site 318586001515 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 318586001516 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 318586001517 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 318586001518 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 318586001519 active site 318586001520 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 318586001521 catalytic residue [active] 318586001522 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 318586001523 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 318586001524 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 318586001525 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 318586001526 dimer interface [polypeptide binding]; other site 318586001527 phosphorylation site [posttranslational modification] 318586001528 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 318586001529 ATP binding site [chemical binding]; other site 318586001530 Mg2+ binding site [ion binding]; other site 318586001531 G-X-G motif; other site 318586001532 Response regulator receiver domain; Region: Response_reg; pfam00072 318586001533 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 318586001534 active site 318586001535 phosphorylation site [posttranslational modification] 318586001536 intermolecular recognition site; other site 318586001537 dimerization interface [polypeptide binding]; other site 318586001538 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 318586001539 recombinase A; Provisional; Region: recA; PRK09354 318586001540 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 318586001541 hexamer interface [polypeptide binding]; other site 318586001542 Walker A motif; other site 318586001543 ATP binding site [chemical binding]; other site 318586001544 Walker B motif; other site 318586001545 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 318586001546 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 318586001547 motif 1; other site 318586001548 active site 318586001549 motif 2; other site 318586001550 motif 3; other site 318586001551 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 318586001552 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 318586001553 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 318586001554 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 318586001555 putative active site [active] 318586001556 putative dimer interface [polypeptide binding]; other site 318586001557 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 318586001558 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 318586001559 GDP-binding site [chemical binding]; other site 318586001560 ACT binding site; other site 318586001561 IMP binding site; other site 318586001562 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 318586001563 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 318586001564 Thiamine pyrophosphokinase; Region: TPK; cd07995 318586001565 active site 318586001566 dimerization interface [polypeptide binding]; other site 318586001567 thiamine binding site [chemical binding]; other site 318586001568 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 318586001569 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 318586001570 dimer interface [polypeptide binding]; other site 318586001571 conserved gate region; other site 318586001572 putative PBP binding loops; other site 318586001573 ABC-ATPase subunit interface; other site 318586001574 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586001575 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 318586001576 dimer interface [polypeptide binding]; other site 318586001577 conserved gate region; other site 318586001578 putative PBP binding loops; other site 318586001579 ABC-ATPase subunit interface; other site 318586001580 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 318586001581 peptide binding site [polypeptide binding]; other site 318586001582 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586001583 dimer interface [polypeptide binding]; other site 318586001584 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 318586001585 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 318586001586 Walker A/P-loop; other site 318586001587 ATP binding site [chemical binding]; other site 318586001588 Q-loop/lid; other site 318586001589 ABC transporter signature motif; other site 318586001590 Walker B; other site 318586001591 D-loop; other site 318586001592 H-loop/switch region; other site 318586001593 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586001594 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 318586001595 Walker A/P-loop; other site 318586001596 ATP binding site [chemical binding]; other site 318586001597 Q-loop/lid; other site 318586001598 ABC transporter signature motif; other site 318586001599 Walker B; other site 318586001600 D-loop; other site 318586001601 H-loop/switch region; other site 318586001602 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586001603 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 318586001604 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 318586001605 metal binding site [ion binding]; metal-binding site 318586001606 putative dimer interface [polypeptide binding]; other site 318586001607 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 318586001608 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 318586001609 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586001610 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318586001611 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 318586001612 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 318586001613 putative substrate translocation pore; other site 318586001614 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586001615 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 318586001616 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 318586001617 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318586001618 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 318586001619 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 318586001620 heme binding site [chemical binding]; other site 318586001621 ferroxidase pore; other site 318586001622 ferroxidase diiron center [ion binding]; other site 318586001623 phosphoglycolate phosphatase; Provisional; Region: PRK13222 318586001624 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586001625 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 318586001626 motif II; other site 318586001627 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 318586001628 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 318586001629 Substrate binding site; other site 318586001630 Mg++ binding site; other site 318586001631 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 318586001632 active site 318586001633 substrate binding site [chemical binding]; other site 318586001634 CoA binding site [chemical binding]; other site 318586001635 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 318586001636 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 318586001637 glutaminase active site [active] 318586001638 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 318586001639 dimer interface [polypeptide binding]; other site 318586001640 active site 318586001641 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 318586001642 dimer interface [polypeptide binding]; other site 318586001643 active site 318586001644 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 318586001645 putative active site pocket [active] 318586001646 cleavage site 318586001647 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 318586001648 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 318586001649 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 318586001650 S-adenosylmethionine binding site [chemical binding]; other site 318586001651 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 318586001652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 318586001653 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 318586001654 UbiA prenyltransferase family; Region: UbiA; cl00337 318586001655 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318586001656 ligand binding site [chemical binding]; other site 318586001657 tellurium resistance terB-like protein; Region: terB_like; cd07177 318586001658 metal binding site [ion binding]; metal-binding site 318586001659 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 318586001660 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 318586001661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586001662 homodimer interface [polypeptide binding]; other site 318586001663 catalytic residue [active] 318586001664 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 318586001665 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 318586001666 active site residue [active] 318586001667 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 318586001668 active site residue [active] 318586001669 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 318586001670 SmpB-tmRNA interface; other site 318586001671 thiamine pyrophosphate protein; Validated; Region: PRK08199 318586001672 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586001673 PYR/PP interface [polypeptide binding]; other site 318586001674 dimer interface [polypeptide binding]; other site 318586001675 TPP binding site [chemical binding]; other site 318586001676 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318586001677 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; cd00568 318586001678 TPP-binding site [chemical binding]; other site 318586001679 Phosphate transporter family; Region: PHO4; cl00396 318586001680 Phosphate transporter family; Region: PHO4; cl00396 318586001681 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 318586001682 nudix motif; other site 318586001683 RF-1 domain; Region: RF-1; cl02875 318586001684 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 318586001685 Transglycosylase; Region: Transgly; cl07896 318586001686 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586001687 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 318586001688 hypothetical protein; Provisional; Region: PRK05415 318586001689 Eukaryotic cytochrome b(561); Region: Cyt_b561; cl14616 318586001690 Domain of unknown function (DUF697); Region: DUF697; cl12064 318586001691 YcjX-like family, DUF463; Region: DUF463; cl01193 318586001692 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 318586001693 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 318586001694 ATP binding site [chemical binding]; other site 318586001695 putative Mg++ binding site [ion binding]; other site 318586001696 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 318586001697 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 318586001698 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 318586001699 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 318586001700 putative active site [active] 318586001701 substrate binding site [chemical binding]; other site 318586001702 putative cosubstrate binding site; other site 318586001703 catalytic site [active] 318586001704 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 318586001705 substrate binding site [chemical binding]; other site 318586001706 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 318586001707 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 318586001708 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 318586001709 active site 318586001710 catalytic residues [active] 318586001711 metal binding site [ion binding]; metal-binding site 318586001712 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 318586001713 active site 318586001714 catalytic residues [active] 318586001715 metal binding site [ion binding]; metal-binding site 318586001716 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 318586001717 active site 318586001718 catalytic residues [active] 318586001719 metal binding site [ion binding]; metal-binding site 318586001720 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 318586001721 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 318586001722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586001723 homodimer interface [polypeptide binding]; other site 318586001724 catalytic residue [active] 318586001725 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586001726 multidrug efflux protein; Reviewed; Region: PRK01766 318586001727 MatE; Region: MatE; cl10513 318586001728 MatE; Region: MatE; cl10513 318586001729 AsnC family; Region: AsnC_trans_reg; pfam01037 318586001730 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 318586001731 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 318586001732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586001733 homodimer interface [polypeptide binding]; other site 318586001734 catalytic residue [active] 318586001735 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 318586001736 Helix-turn-helix domains; Region: HTH; cl00088 318586001737 AsnC family; Region: AsnC_trans_reg; pfam01037 318586001738 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 318586001739 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 318586001740 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318586001741 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318586001742 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 318586001743 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 318586001744 Active Sites [active] 318586001745 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 318586001746 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 318586001747 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 318586001748 FAD binding pocket [chemical binding]; other site 318586001749 FAD binding motif [chemical binding]; other site 318586001750 phosphate binding motif [ion binding]; other site 318586001751 beta-alpha-beta structure motif; other site 318586001752 NAD binding pocket [chemical binding]; other site 318586001753 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 318586001754 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 318586001755 active site 318586001756 interdomain interaction site; other site 318586001757 putative metal-binding site [ion binding]; other site 318586001758 nucleotide binding site [chemical binding]; other site 318586001759 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 318586001760 domain I; other site 318586001761 DNA binding groove [nucleotide binding] 318586001762 phosphate binding site [ion binding]; other site 318586001763 domain II; other site 318586001764 domain III; other site 318586001765 nucleotide binding site [chemical binding]; other site 318586001766 catalytic site [active] 318586001767 domain IV; other site 318586001768 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318586001769 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 318586001770 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 318586001771 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 318586001772 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 318586001773 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 318586001774 Protein of unknown function, DUF488; Region: DUF488; cl01246 318586001775 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318586001776 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 318586001777 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586001778 DctM-like transporters; Region: DctM; pfam06808 318586001779 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 318586001780 NMT1-like family; Region: NMT1_2; cl15260 318586001781 Phosphate transporter family; Region: PHO4; cl00396 318586001782 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318586001783 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 318586001784 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586001785 Helix-turn-helix domains; Region: HTH; cl00088 318586001786 WHG domain; Region: WHG; pfam13305 318586001787 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 318586001788 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 318586001789 dimer interface [polypeptide binding]; other site 318586001790 active site 318586001791 CoA binding pocket [chemical binding]; other site 318586001792 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 318586001793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586001794 NAD(P) binding site [chemical binding]; other site 318586001795 active site 318586001796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586001797 AMP-binding enzyme; Region: AMP-binding; cl15778 318586001798 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318586001799 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586001800 DNA binding site [nucleotide binding] 318586001801 domain linker motif; other site 318586001802 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_8; cd06287 318586001803 putative dimerization interface [polypeptide binding]; other site 318586001804 putative ligand binding site [chemical binding]; other site 318586001805 xanthine permease; Region: pbuX; TIGR03173 318586001806 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 318586001807 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 318586001808 active site 318586001809 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318586001810 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318586001811 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 318586001812 Na binding site [ion binding]; other site 318586001813 substrate binding site [chemical binding]; other site 318586001814 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318586001815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586001816 DNA-binding site [nucleotide binding]; DNA binding site 318586001817 FCD domain; Region: FCD; cl11656 318586001818 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 318586001819 active site 318586001820 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318586001821 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 318586001822 translocation protein TolB; Provisional; Region: tolB; PRK05137 318586001823 TolB amino-terminal domain; Region: TolB_N; cl00639 318586001824 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318586001825 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318586001826 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318586001827 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318586001828 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318586001829 ligand binding site [chemical binding]; other site 318586001830 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 318586001831 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 318586001832 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 318586001833 Ligand Binding Site [chemical binding]; other site 318586001834 FtsH Extracellular; Region: FtsH_ext; pfam06480 318586001835 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 318586001836 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 318586001837 Walker A motif; other site 318586001838 ATP binding site [chemical binding]; other site 318586001839 Walker B motif; other site 318586001840 arginine finger; other site 318586001841 Peptidase family M41; Region: Peptidase_M41; pfam01434 318586001842 Chorismate mutase type II; Region: CM_2; cl00693 318586001843 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 318586001844 CoenzymeA binding site [chemical binding]; other site 318586001845 subunit interaction site [polypeptide binding]; other site 318586001846 PHB binding site; other site 318586001847 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 318586001848 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 318586001849 Walker A motif; other site 318586001850 ATP binding site [chemical binding]; other site 318586001851 Walker B motif; other site 318586001852 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 318586001853 Peptidase family M48; Region: Peptidase_M48; cl12018 318586001854 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 318586001855 RuvA N terminal domain; Region: RuvA_N; pfam01330 318586001856 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 318586001857 active site 318586001858 putative DNA-binding cleft [nucleotide binding]; other site 318586001859 dimer interface [polypeptide binding]; other site 318586001860 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 318586001861 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318586001862 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318586001863 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318586001864 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 318586001865 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 318586001866 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318586001867 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 318586001868 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 318586001869 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 318586001870 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 318586001871 dihydrodipicolinate synthase; Region: dapA; TIGR00674 318586001872 dimer interface [polypeptide binding]; other site 318586001873 active site 318586001874 catalytic residue [active] 318586001875 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 318586001876 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586001877 catalytic residue [active] 318586001878 EamA-like transporter family; Region: EamA; cl01037 318586001879 EamA-like transporter family; Region: EamA; cl01037 318586001880 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 318586001881 active site 318586001882 dimerization interface [polypeptide binding]; other site 318586001883 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586001884 DNA-binding site [nucleotide binding]; DNA binding site 318586001885 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 318586001886 UTRA domain; Region: UTRA; cl01230 318586001887 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 318586001888 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 318586001889 active site 318586001890 imidazolonepropionase; Validated; Region: PRK09356 318586001891 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 318586001892 active site 318586001893 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 318586001894 active sites [active] 318586001895 tetramer interface [polypeptide binding]; other site 318586001896 N-formylglutamate amidohydrolase; Region: FGase; cl01522 318586001897 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586001898 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586001899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586001900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586001901 active site 318586001902 urocanate hydratase; Provisional; Region: PRK05414 318586001903 urocanate hydratase; Region: hutU; TIGR01228 318586001904 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586001905 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 318586001906 substrate binding pocket [chemical binding]; other site 318586001907 membrane-bound complex binding site; other site 318586001908 hinge residues; other site 318586001909 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 318586001910 dimer interface [polypeptide binding]; other site 318586001911 conserved gate region; other site 318586001912 putative PBP binding loops; other site 318586001913 ABC-ATPase subunit interface; other site 318586001914 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586001915 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 318586001916 dimer interface [polypeptide binding]; other site 318586001917 conserved gate region; other site 318586001918 putative PBP binding loops; other site 318586001919 ABC-ATPase subunit interface; other site 318586001920 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586001921 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 318586001922 Walker A/P-loop; other site 318586001923 ATP binding site [chemical binding]; other site 318586001924 Q-loop/lid; other site 318586001925 ABC transporter signature motif; other site 318586001926 Walker B; other site 318586001927 D-loop; other site 318586001928 H-loop/switch region; other site 318586001929 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 318586001930 active site 318586001931 FMN binding site [chemical binding]; other site 318586001932 substrate binding site [chemical binding]; other site 318586001933 homotetramer interface [polypeptide binding]; other site 318586001934 catalytic residue [active] 318586001935 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318586001936 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 318586001937 nucleophile elbow; other site 318586001938 Patatin phospholipase; Region: DUF3734; pfam12536 318586001939 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 318586001940 Domain of unknown function DUF21; Region: DUF21; pfam01595 318586001941 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 318586001942 Transporter associated domain; Region: CorC_HlyC; cl08393 318586001943 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 318586001944 Helix-turn-helix domains; Region: HTH; cl00088 318586001945 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 318586001946 dimerization interface [polypeptide binding]; other site 318586001947 Gram-negative bacterial tonB protein; Region: TonB; cl10048 318586001948 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 318586001949 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318586001950 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 318586001951 FAD binding pocket [chemical binding]; other site 318586001952 FAD binding motif [chemical binding]; other site 318586001953 phosphate binding motif [ion binding]; other site 318586001954 NAD binding pocket [chemical binding]; other site 318586001955 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 318586001956 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 318586001957 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586001958 catalytic residue [active] 318586001959 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 318586001960 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586001961 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 318586001962 Walker A/P-loop; other site 318586001963 ATP binding site [chemical binding]; other site 318586001964 Q-loop/lid; other site 318586001965 ABC transporter signature motif; other site 318586001966 Walker B; other site 318586001967 D-loop; other site 318586001968 H-loop/switch region; other site 318586001969 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 318586001970 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 318586001971 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 318586001972 active site 318586001973 DNA polymerase IV; Validated; Region: PRK02406 318586001974 DNA binding site [nucleotide binding] 318586001975 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 318586001976 putative metal binding site [ion binding]; other site 318586001977 elongation factor Tu; Reviewed; Region: PRK00049 318586001978 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 318586001979 G1 box; other site 318586001980 GEF interaction site [polypeptide binding]; other site 318586001981 GTP/Mg2+ binding site [chemical binding]; other site 318586001982 Switch I region; other site 318586001983 G2 box; other site 318586001984 G3 box; other site 318586001985 Switch II region; other site 318586001986 G4 box; other site 318586001987 G5 box; other site 318586001988 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 318586001989 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 318586001990 Antibiotic Binding Site [chemical binding]; other site 318586001991 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 318586001992 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 318586001993 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 318586001994 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586001995 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318586001996 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 318586001997 trimer interface [polypeptide binding]; other site 318586001998 active site 318586001999 substrate binding site [chemical binding]; other site 318586002000 CoA binding site [chemical binding]; other site 318586002001 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586002002 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586002003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586002004 Walker A/P-loop; other site 318586002005 ATP binding site [chemical binding]; other site 318586002006 Q-loop/lid; other site 318586002007 ABC transporter signature motif; other site 318586002008 Walker B; other site 318586002009 D-loop; other site 318586002010 H-loop/switch region; other site 318586002011 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 318586002012 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 318586002013 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 318586002014 putative homodimer interface [polypeptide binding]; other site 318586002015 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 318586002016 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 318586002017 23S rRNA interface [nucleotide binding]; other site 318586002018 L7/L12 interface [polypeptide binding]; other site 318586002019 putative thiostrepton binding site; other site 318586002020 L25 interface [polypeptide binding]; other site 318586002021 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 318586002022 mRNA/rRNA interface [nucleotide binding]; other site 318586002023 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 318586002024 23S rRNA interface [nucleotide binding]; other site 318586002025 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 318586002026 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 318586002027 core dimer interface [polypeptide binding]; other site 318586002028 peripheral dimer interface [polypeptide binding]; other site 318586002029 L10 interface [polypeptide binding]; other site 318586002030 L11 interface [polypeptide binding]; other site 318586002031 putative EF-Tu interaction site [polypeptide binding]; other site 318586002032 putative EF-G interaction site [polypeptide binding]; other site 318586002033 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 318586002034 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 318586002035 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 318586002036 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 318586002037 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 318586002038 RPB11 interaction site [polypeptide binding]; other site 318586002039 RPB12 interaction site [polypeptide binding]; other site 318586002040 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 318586002041 RPB1 interaction site [polypeptide binding]; other site 318586002042 RPB11 interaction site [polypeptide binding]; other site 318586002043 RPB10 interaction site [polypeptide binding]; other site 318586002044 RPB3 interaction site [polypeptide binding]; other site 318586002045 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 318586002046 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 318586002047 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 318586002048 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 318586002049 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 318586002050 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 318586002051 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 318586002052 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 318586002053 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 318586002054 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 318586002055 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 318586002056 DNA binding site [nucleotide binding] 318586002057 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 318586002058 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 318586002059 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 318586002060 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 318586002061 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 318586002062 S17 interaction site [polypeptide binding]; other site 318586002063 S8 interaction site; other site 318586002064 16S rRNA interaction site [nucleotide binding]; other site 318586002065 streptomycin interaction site [chemical binding]; other site 318586002066 23S rRNA interaction site [nucleotide binding]; other site 318586002067 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 318586002068 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 318586002069 elongation factor G; Reviewed; Region: PRK00007 318586002070 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 318586002071 G1 box; other site 318586002072 putative GEF interaction site [polypeptide binding]; other site 318586002073 GTP/Mg2+ binding site [chemical binding]; other site 318586002074 Switch I region; other site 318586002075 G2 box; other site 318586002076 G3 box; other site 318586002077 Switch II region; other site 318586002078 G4 box; other site 318586002079 G5 box; other site 318586002080 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 318586002081 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 318586002082 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 318586002083 elongation factor Tu; Reviewed; Region: PRK00049 318586002084 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 318586002085 G1 box; other site 318586002086 GEF interaction site [polypeptide binding]; other site 318586002087 GTP/Mg2+ binding site [chemical binding]; other site 318586002088 Switch I region; other site 318586002089 G2 box; other site 318586002090 G3 box; other site 318586002091 Switch II region; other site 318586002092 G4 box; other site 318586002093 G5 box; other site 318586002094 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 318586002095 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 318586002096 Antibiotic Binding Site [chemical binding]; other site 318586002097 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 318586002098 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 318586002099 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 318586002100 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 318586002101 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 318586002102 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 318586002103 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 318586002104 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 318586002105 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 318586002106 putative translocon binding site; other site 318586002107 protein-rRNA interface [nucleotide binding]; other site 318586002108 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 318586002109 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 318586002110 G-X-X-G motif; other site 318586002111 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 318586002112 23S rRNA interface [nucleotide binding]; other site 318586002113 5S rRNA interface [nucleotide binding]; other site 318586002114 putative antibiotic binding site [chemical binding]; other site 318586002115 L25 interface [polypeptide binding]; other site 318586002116 L27 interface [polypeptide binding]; other site 318586002117 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 318586002118 23S rRNA interface [nucleotide binding]; other site 318586002119 putative translocon interaction site; other site 318586002120 signal recognition particle (SRP54) interaction site; other site 318586002121 L23 interface [polypeptide binding]; other site 318586002122 trigger factor interaction site; other site 318586002123 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 318586002124 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 318586002125 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 318586002126 KOW motif; Region: KOW; cl00354 318586002127 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 318586002128 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 318586002129 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 318586002130 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 318586002131 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 318586002132 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 318586002133 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 318586002134 5S rRNA interface [nucleotide binding]; other site 318586002135 23S rRNA interface [nucleotide binding]; other site 318586002136 L5 interface [polypeptide binding]; other site 318586002137 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 318586002138 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 318586002139 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 318586002140 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 318586002141 23S rRNA binding site [nucleotide binding]; other site 318586002142 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 318586002143 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 318586002144 SecY translocase; Region: SecY; pfam00344 318586002145 adenylate kinase; Reviewed; Region: adk; PRK00279 318586002146 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 318586002147 AMP-binding site [chemical binding]; other site 318586002148 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 318586002149 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 318586002150 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 318586002151 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 318586002152 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 318586002153 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 318586002154 alphaNTD - beta interaction site [polypeptide binding]; other site 318586002155 alphaNTD homodimer interface [polypeptide binding]; other site 318586002156 alphaNTD - beta' interaction site [polypeptide binding]; other site 318586002157 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 318586002158 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 318586002159 Autoinducer binding domain; Region: Autoind_bind; pfam03472 318586002160 Helix-turn-helix domains; Region: HTH; cl00088 318586002161 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586002162 recombination factor protein RarA; Reviewed; Region: PRK13342 318586002163 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 318586002164 Walker A motif; other site 318586002165 ATP binding site [chemical binding]; other site 318586002166 Walker B motif; other site 318586002167 arginine finger; other site 318586002168 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 318586002169 CrcB-like protein; Region: CRCB; cl09114 318586002170 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318586002171 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 318586002172 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318586002173 active site 318586002174 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318586002175 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 318586002176 active site 318586002177 motif I; other site 318586002178 motif II; other site 318586002179 ATP12 chaperone protein; Region: ATP12; cl02228 318586002180 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 318586002181 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 318586002182 substrate binding pocket [chemical binding]; other site 318586002183 membrane-bound complex binding site; other site 318586002184 hinge residues; other site 318586002185 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 318586002186 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 318586002187 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 318586002188 putative PBP binding loops; other site 318586002189 dimer interface [polypeptide binding]; other site 318586002190 ABC-ATPase subunit interface; other site 318586002191 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586002192 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 318586002193 dimer interface [polypeptide binding]; other site 318586002194 conserved gate region; other site 318586002195 putative PBP binding loops; other site 318586002196 ABC-ATPase subunit interface; other site 318586002197 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586002198 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 318586002199 Walker A/P-loop; other site 318586002200 ATP binding site [chemical binding]; other site 318586002201 Q-loop/lid; other site 318586002202 ABC transporter signature motif; other site 318586002203 Walker B; other site 318586002204 D-loop; other site 318586002205 H-loop/switch region; other site 318586002206 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586002207 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 318586002208 homodimer interface [polypeptide binding]; other site 318586002209 substrate-cofactor binding pocket; other site 318586002210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586002211 catalytic residue [active] 318586002212 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 318586002213 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 318586002214 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 318586002215 Walker A/P-loop; other site 318586002216 ATP binding site [chemical binding]; other site 318586002217 Q-loop/lid; other site 318586002218 ABC transporter signature motif; other site 318586002219 Walker B; other site 318586002220 D-loop; other site 318586002221 H-loop/switch region; other site 318586002222 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586002223 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 318586002224 Walker A/P-loop; other site 318586002225 ATP binding site [chemical binding]; other site 318586002226 Q-loop/lid; other site 318586002227 ABC transporter signature motif; other site 318586002228 Walker B; other site 318586002229 D-loop; other site 318586002230 H-loop/switch region; other site 318586002231 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586002232 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 318586002233 dimer interface [polypeptide binding]; other site 318586002234 conserved gate region; other site 318586002235 putative PBP binding loops; other site 318586002236 ABC-ATPase subunit interface; other site 318586002237 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586002238 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 318586002239 dimer interface [polypeptide binding]; other site 318586002240 conserved gate region; other site 318586002241 putative PBP binding loops; other site 318586002242 ABC-ATPase subunit interface; other site 318586002243 Transmembrane secretion effector; Region: MFS_3; pfam05977 318586002244 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 318586002245 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 318586002246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586002247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586002248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 318586002249 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586002250 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 318586002251 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586002252 catalytic residue [active] 318586002253 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 318586002254 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586002255 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 318586002256 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318586002257 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 318586002258 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 318586002259 motif II; other site 318586002260 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 318586002261 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586002262 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 318586002263 catalytic residue [active] 318586002264 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 318586002265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586002266 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 318586002267 putative L-serine binding site [chemical binding]; other site 318586002268 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 318586002269 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 318586002270 active site 318586002271 metal binding site [ion binding]; metal-binding site 318586002272 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 318586002273 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 318586002274 PhoU domain; Region: PhoU; pfam01895 318586002275 PhoU domain; Region: PhoU; pfam01895 318586002276 hypothetical protein; Provisional; Region: PRK10756 318586002277 CreA protein; Region: CreA; pfam05981 318586002278 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 318586002279 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 318586002280 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 318586002281 anti sigma factor interaction site; other site 318586002282 regulatory phosphorylation site [posttranslational modification]; other site 318586002283 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 318586002284 active site 318586002285 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586002286 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586002287 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586002288 Uncharacterized conserved protein [Function unknown]; Region: COG2308 318586002289 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 318586002290 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 318586002291 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 318586002292 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 318586002293 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 318586002294 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 318586002295 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 318586002296 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 318586002297 MutS domain I; Region: MutS_I; pfam01624 318586002298 MutS domain II; Region: MutS_II; pfam05188 318586002299 MutS family domain IV; Region: MutS_IV; pfam05190 318586002300 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 318586002301 Walker A/P-loop; other site 318586002302 ATP binding site [chemical binding]; other site 318586002303 Q-loop/lid; other site 318586002304 ABC transporter signature motif; other site 318586002305 Walker B; other site 318586002306 D-loop; other site 318586002307 H-loop/switch region; other site 318586002308 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586002309 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 318586002310 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318586002311 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 318586002312 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 318586002313 dimer interface [polypeptide binding]; other site 318586002314 conserved gate region; other site 318586002315 putative PBP binding loops; other site 318586002316 ABC-ATPase subunit interface; other site 318586002317 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 318586002318 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 318586002319 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 318586002320 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586002321 Walker A/P-loop; other site 318586002322 ATP binding site [chemical binding]; other site 318586002323 Q-loop/lid; other site 318586002324 ABC transporter signature motif; other site 318586002325 Walker B; other site 318586002326 D-loop; other site 318586002327 H-loop/switch region; other site 318586002328 TOBE domain; Region: TOBE_2; cl01440 318586002329 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 318586002330 O-Antigen ligase; Region: Wzy_C; cl04850 318586002331 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 318586002332 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 318586002333 active site 318586002334 Acyl transferase domain; Region: Acyl_transf_1; cl08282 318586002335 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 318586002336 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 318586002337 putative NADP binding site [chemical binding]; other site 318586002338 active site 318586002339 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 318586002340 peptide synthase; Validated; Region: PRK05691 318586002341 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 318586002342 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318586002343 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 318586002344 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 318586002345 Probable Catalytic site; other site 318586002346 metal-binding site 318586002347 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 318586002348 active site 318586002349 substrate binding site [chemical binding]; other site 318586002350 cosubstrate binding site; other site 318586002351 catalytic site [active] 318586002352 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 318586002353 AMP-binding enzyme; Region: AMP-binding; cl15778 318586002354 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586002355 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 318586002356 AMP-binding enzyme; Region: AMP-binding; cl15778 318586002357 acetoacetyl-CoA synthase; Region: ac_ac_CoA_syn; TIGR01217 318586002358 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318586002359 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 318586002360 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 318586002361 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 318586002362 putative ADP-binding pocket [chemical binding]; other site 318586002363 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 318586002364 Bacterial sugar transferase; Region: Bac_transf; cl00939 318586002365 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 318586002366 active site 318586002367 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 318586002368 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 318586002369 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 318586002370 Chain length determinant protein; Region: Wzz; cl15801 318586002371 MatE; Region: MatE; cl10513 318586002372 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 318586002373 Malic enzyme, N-terminal domain; Region: malic; pfam00390 318586002374 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 318586002375 putative NAD(P) binding site [chemical binding]; other site 318586002376 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318586002377 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 318586002378 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 318586002379 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 318586002380 active site residue [active] 318586002381 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 318586002382 Isochorismatase family; Region: Isochorismatase; pfam00857 318586002383 catalytic triad [active] 318586002384 metal binding site [ion binding]; metal-binding site 318586002385 conserved cis-peptide bond; other site 318586002386 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 318586002387 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 318586002388 active site 318586002389 NAD synthetase; Provisional; Region: PRK13981 318586002390 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 318586002391 multimer interface [polypeptide binding]; other site 318586002392 active site 318586002393 catalytic triad [active] 318586002394 protein interface 1 [polypeptide binding]; other site 318586002395 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 318586002396 homodimer interface [polypeptide binding]; other site 318586002397 NAD binding pocket [chemical binding]; other site 318586002398 ATP binding pocket [chemical binding]; other site 318586002399 Mg binding site [ion binding]; other site 318586002400 active-site loop [active] 318586002401 MORN repeat; Region: MORN; cl14787 318586002402 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 318586002403 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 318586002404 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 318586002405 LysE type translocator; Region: LysE; cl00565 318586002406 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 318586002407 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 318586002408 NAD binding site [chemical binding]; other site 318586002409 homotetramer interface [polypeptide binding]; other site 318586002410 homodimer interface [polypeptide binding]; other site 318586002411 substrate binding site [chemical binding]; other site 318586002412 active site 318586002413 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 318586002414 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318586002415 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 318586002416 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 318586002417 DNA-binding site [nucleotide binding]; DNA binding site 318586002418 RNA-binding motif; other site 318586002419 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 318586002420 DNA-binding site [nucleotide binding]; DNA binding site 318586002421 RNA-binding motif; other site 318586002422 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 318586002423 aspartate kinase; Reviewed; Region: PRK06635 318586002424 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 318586002425 putative nucleotide binding site [chemical binding]; other site 318586002426 putative catalytic residues [active] 318586002427 putative Mg ion binding site [ion binding]; other site 318586002428 putative aspartate binding site [chemical binding]; other site 318586002429 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 318586002430 putative allosteric regulatory site; other site 318586002431 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 318586002432 putative allosteric regulatory residue; other site 318586002433 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 318586002434 GAF domain; Region: GAF; cl15785 318586002435 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 318586002436 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 318586002437 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 318586002438 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586002439 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 318586002440 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 318586002441 putative PBP binding regions; other site 318586002442 ABC-ATPase subunit interface; other site 318586002443 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 318586002444 putative metal binding site [ion binding]; other site 318586002445 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 318586002446 homodimer interaction site [polypeptide binding]; other site 318586002447 cofactor binding site; other site 318586002448 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586002449 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 318586002450 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 318586002451 ATP binding site [chemical binding]; other site 318586002452 Mg2+ binding site [ion binding]; other site 318586002453 G-X-G motif; other site 318586002454 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 318586002455 Ribonuclease P; Region: Ribonuclease_P; cl00457 318586002456 Haemolytic domain; Region: Haemolytic; cl00506 318586002457 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 318586002458 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 318586002459 Ligand Binding Site [chemical binding]; other site 318586002460 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 318586002461 membrane protein insertase; Provisional; Region: PRK01318 318586002462 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 318586002463 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 318586002464 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 318586002465 MOSC domain; Region: MOSC; pfam03473 318586002466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586002467 Predicted GTPase [General function prediction only]; Region: COG0218 318586002468 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 318586002469 feedback inhibition sensing region; other site 318586002470 homohexameric interface [polypeptide binding]; other site 318586002471 nucleotide binding site [chemical binding]; other site 318586002472 N-acetyl-L-glutamate binding site [chemical binding]; other site 318586002473 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 318586002474 catalytic core [active] 318586002475 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 318586002476 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 318586002477 putative substrate binding site [chemical binding]; other site 318586002478 putative ATP binding site [chemical binding]; other site 318586002479 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 318586002480 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 318586002481 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586002482 active site 318586002483 HIGH motif; other site 318586002484 nucleotide binding site [chemical binding]; other site 318586002485 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318586002486 active site 318586002487 KMSKS motif; other site 318586002488 trigger factor; Provisional; Region: tig; PRK01490 318586002489 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318586002490 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 318586002491 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 318586002492 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 318586002493 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 318586002494 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 318586002495 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 318586002496 YceI-like domain; Region: YceI; cl01001 318586002497 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 318586002498 peptide chain release factor 1; Validated; Region: prfA; PRK00591 318586002499 RF-1 domain; Region: RF-1; cl02875 318586002500 RF-1 domain; Region: RF-1; cl02875 318586002501 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 318586002502 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 318586002503 S-adenosylmethionine binding site [chemical binding]; other site 318586002504 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 318586002505 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 318586002506 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 318586002507 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 318586002508 SurA N-terminal domain; Region: SurA_N_3; cl07813 318586002509 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318586002510 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 318586002511 Organic solvent tolerance protein; Region: OstA_C; pfam04453 318586002512 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 318586002513 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 318586002514 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 318586002515 multifunctional aminopeptidase A; Provisional; Region: PRK00913 318586002516 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 318586002517 interface (dimer of trimers) [polypeptide binding]; other site 318586002518 Substrate-binding/catalytic site; other site 318586002519 Zn-binding sites [ion binding]; other site 318586002520 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 318586002521 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 318586002522 catalytic motif [active] 318586002523 Catalytic residue [active] 318586002524 MarC family integral membrane protein; Region: MarC; cl00919 318586002525 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 318586002526 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 318586002527 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 318586002528 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 318586002529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586002530 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 318586002531 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 318586002532 Cupin domain; Region: Cupin_2; cl09118 318586002533 Helix-turn-helix domains; Region: HTH; cl00088 318586002534 Entericidin EcnA/B family; Region: Entericidin; cl02322 318586002535 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318586002536 Entericidin EcnA/B family; Region: Entericidin; cl02322 318586002537 acyl-CoA esterase; Provisional; Region: PRK10673 318586002538 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 318586002539 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 318586002540 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 318586002541 dimer interface [polypeptide binding]; other site 318586002542 active site 318586002543 glycine-pyridoxal phosphate binding site [chemical binding]; other site 318586002544 folate binding site [chemical binding]; other site 318586002545 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 318586002546 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 318586002547 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 318586002548 G1 box; other site 318586002549 putative GEF interaction site [polypeptide binding]; other site 318586002550 GTP/Mg2+ binding site [chemical binding]; other site 318586002551 Switch I region; other site 318586002552 G2 box; other site 318586002553 G3 box; other site 318586002554 Switch II region; other site 318586002555 G4 box; other site 318586002556 G5 box; other site 318586002557 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 318586002558 OsmC-like protein; Region: OsmC; cl00767 318586002559 EamA-like transporter family; Region: EamA; cl01037 318586002560 EamA-like transporter family; Region: EamA; cl01037 318586002561 Domain of unknown function (DUF305); Region: DUF305; cl15795 318586002562 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 318586002563 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318586002564 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 318586002565 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 318586002566 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 318586002567 putative catalytic site [active] 318586002568 putative phosphate binding site [ion binding]; other site 318586002569 active site 318586002570 metal binding site A [ion binding]; metal-binding site 318586002571 DNA binding site [nucleotide binding] 318586002572 putative AP binding site [nucleotide binding]; other site 318586002573 putative metal binding site B [ion binding]; other site 318586002574 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 318586002575 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 318586002576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586002577 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 318586002578 NAD(P) binding site [chemical binding]; other site 318586002579 active site 318586002580 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 318586002581 putative ligand binding site [chemical binding]; other site 318586002582 Thymidylate synthase complementing protein; Region: Thy1; cl03630 318586002583 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586002584 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 318586002585 dimer interface [polypeptide binding]; other site 318586002586 active site 318586002587 metal binding site [ion binding]; metal-binding site 318586002588 glutathione binding site [chemical binding]; other site 318586002589 Helix-turn-helix domains; Region: HTH; cl00088 318586002590 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 318586002591 aspartate aminotransferase; Provisional; Region: PRK05764 318586002592 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 318586002593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586002594 homodimer interface [polypeptide binding]; other site 318586002595 catalytic residue [active] 318586002596 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 318586002597 Aspartase; Region: Aspartase; cd01357 318586002598 active sites [active] 318586002599 tetramer interface [polypeptide binding]; other site 318586002600 cell density-dependent motility repressor; Provisional; Region: PRK10082 318586002601 Helix-turn-helix domains; Region: HTH; cl00088 318586002602 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 318586002603 dimerization interface [polypeptide binding]; other site 318586002604 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 318586002605 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 318586002606 Helix-turn-helix domains; Region: HTH; cl00088 318586002607 AsnC family; Region: AsnC_trans_reg; pfam01037 318586002608 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 318586002609 Proline dehydrogenase; Region: Pro_dh; cl03282 318586002610 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 318586002611 Glutamate binding site [chemical binding]; other site 318586002612 NAD binding site [chemical binding]; other site 318586002613 catalytic residues [active] 318586002614 NMT1-like family; Region: NMT1_2; cl15260 318586002615 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318586002616 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586002617 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 318586002618 dimer interface [polypeptide binding]; other site 318586002619 conserved gate region; other site 318586002620 putative PBP binding loops; other site 318586002621 ABC-ATPase subunit interface; other site 318586002622 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 318586002623 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 318586002624 Walker A/P-loop; other site 318586002625 ATP binding site [chemical binding]; other site 318586002626 Q-loop/lid; other site 318586002627 ABC transporter signature motif; other site 318586002628 Walker B; other site 318586002629 D-loop; other site 318586002630 H-loop/switch region; other site 318586002631 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 318586002632 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586002633 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586002634 active site 318586002635 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 318586002636 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 318586002637 active site 318586002638 substrate binding site [chemical binding]; other site 318586002639 Mg2+ binding site [ion binding]; other site 318586002640 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 318586002641 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318586002642 active site 318586002643 catalytic residues [active] 318586002644 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 318586002645 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 318586002646 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 318586002647 active site 318586002648 dimer interface [polypeptide binding]; other site 318586002649 effector binding site; other site 318586002650 TSCPD domain; Region: TSCPD; cl14834 318586002651 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 318586002652 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 318586002653 catalytic residues [active] 318586002654 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 318586002655 AMP-binding enzyme; Region: AMP-binding; cl15778 318586002656 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586002657 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 318586002658 DNA-binding site [nucleotide binding]; DNA binding site 318586002659 RNA-binding motif; other site 318586002660 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 318586002661 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 318586002662 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 318586002663 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 318586002664 active site 318586002665 dimer interface [polypeptide binding]; other site 318586002666 motif 1; other site 318586002667 motif 2; other site 318586002668 motif 3; other site 318586002669 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 318586002670 anticodon binding site; other site 318586002671 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586002672 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 318586002673 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 318586002674 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 318586002675 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 318586002676 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 318586002677 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 318586002678 active site 318586002679 catalytic residues [active] 318586002680 DNA binding site [nucleotide binding] 318586002681 Int/Topo IB signature motif; other site 318586002682 Protein of unknown function (DUF550); Region: DUF550; pfam04447 318586002683 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 318586002684 DNA polymerase III subunit beta; Validated; Region: PRK05643 318586002685 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 318586002686 putative DNA binding surface [nucleotide binding]; other site 318586002687 dimer interface [polypeptide binding]; other site 318586002688 beta-clamp/clamp loader binding surface; other site 318586002689 beta-clamp/translesion DNA polymerase binding surface; other site 318586002690 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 318586002691 non-specific DNA binding site [nucleotide binding]; other site 318586002692 salt bridge; other site 318586002693 sequence-specific DNA binding site [nucleotide binding]; other site 318586002694 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 318586002695 Catalytic site [active] 318586002696 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 318586002697 D5 N terminal like; Region: D5_N; cl07360 318586002698 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 318586002699 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 318586002700 Helix-turn-helix domains; Region: HTH; cl00088 318586002701 DNA-binding interface [nucleotide binding]; DNA binding site 318586002702 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 318586002703 Phage Terminase; Region: Terminase_1; pfam03354 318586002704 Phage portal protein; Region: Phage_portal; pfam04860 318586002705 Phage-related protein [Function unknown]; Region: COG4695; cl01923 318586002706 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 318586002707 oligomer interface [polypeptide binding]; other site 318586002708 active site residues [active] 318586002709 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 318586002710 Phage capsid family; Region: Phage_capsid; pfam05065 318586002711 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 318586002712 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 318586002713 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 318586002714 Phage major tail protein 2; Region: Phage_tail_2; cl11463 318586002715 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 318586002716 Mu-like prophage protein [General function prediction only]; Region: COG3941 318586002717 tape measure domain; Region: tape_meas_nterm; TIGR02675 318586002718 Phage-related protein, tail component [Function unknown]; Region: COG4733 318586002719 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586002720 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586002721 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586002722 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318586002723 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 318586002724 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 318586002725 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 318586002726 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586002727 PYR/PP interface [polypeptide binding]; other site 318586002728 dimer interface [polypeptide binding]; other site 318586002729 TPP binding site [chemical binding]; other site 318586002730 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318586002731 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 318586002732 TPP-binding site [chemical binding]; other site 318586002733 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 318586002734 D-galactonate transporter; Region: 2A0114; TIGR00893 318586002735 putative substrate translocation pore; other site 318586002736 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 318586002737 AMP-binding enzyme; Region: AMP-binding; cl15778 318586002738 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586002739 NAD(P) binding site [chemical binding]; other site 318586002740 catalytic residues [active] 318586002741 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318586002742 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586002743 DNA binding site [nucleotide binding] 318586002744 domain linker motif; other site 318586002745 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 318586002746 putative dimerization interface [polypeptide binding]; other site 318586002747 putative ligand binding site [chemical binding]; other site 318586002748 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586002749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318586002750 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318586002751 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318586002752 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318586002753 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318586002754 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 318586002755 active site 318586002756 Creatinine amidohydrolase; Region: Creatininase; cl00618 318586002757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586002758 Helix-turn-helix domains; Region: HTH; cl00088 318586002759 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 318586002760 dimerization interface [polypeptide binding]; other site 318586002761 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586002762 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 318586002763 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 318586002764 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 318586002765 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 318586002766 dimer interface [polypeptide binding]; other site 318586002767 conserved gate region; other site 318586002768 putative PBP binding loops; other site 318586002769 ABC-ATPase subunit interface; other site 318586002770 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586002771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586002772 Walker A/P-loop; other site 318586002773 ATP binding site [chemical binding]; other site 318586002774 Q-loop/lid; other site 318586002775 ABC transporter signature motif; other site 318586002776 Walker B; other site 318586002777 D-loop; other site 318586002778 H-loop/switch region; other site 318586002779 TOBE domain; Region: TOBE_2; cl01440 318586002780 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586002781 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 318586002782 substrate binding pocket [chemical binding]; other site 318586002783 membrane-bound complex binding site; other site 318586002784 hinge residues; other site 318586002785 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586002786 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 318586002787 dimer interface [polypeptide binding]; other site 318586002788 conserved gate region; other site 318586002789 putative PBP binding loops; other site 318586002790 ABC-ATPase subunit interface; other site 318586002791 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586002792 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 318586002793 dimer interface [polypeptide binding]; other site 318586002794 conserved gate region; other site 318586002795 putative PBP binding loops; other site 318586002796 ABC-ATPase subunit interface; other site 318586002797 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586002798 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 318586002799 Walker A/P-loop; other site 318586002800 ATP binding site [chemical binding]; other site 318586002801 Q-loop/lid; other site 318586002802 ABC transporter signature motif; other site 318586002803 Walker B; other site 318586002804 D-loop; other site 318586002805 H-loop/switch region; other site 318586002806 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 318586002807 putative substrate translocation pore; other site 318586002808 choline dehydrogenase; Validated; Region: PRK02106 318586002809 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586002810 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 318586002811 putative ligand binding site [chemical binding]; other site 318586002812 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586002813 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586002814 Walker A/P-loop; other site 318586002815 ATP binding site [chemical binding]; other site 318586002816 Q-loop/lid; other site 318586002817 ABC transporter signature motif; other site 318586002818 Walker B; other site 318586002819 D-loop; other site 318586002820 H-loop/switch region; other site 318586002821 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 318586002822 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 318586002823 TM-ABC transporter signature motif; other site 318586002824 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318586002825 Helix-turn-helix domains; Region: HTH; cl00088 318586002826 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 318586002827 dimerization interface [polypeptide binding]; other site 318586002828 substrate binding pocket [chemical binding]; other site 318586002829 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 318586002830 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 318586002831 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 318586002832 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318586002833 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 318586002834 active site 318586002835 EamA-like transporter family; Region: EamA; cl01037 318586002836 NIPSNAP; Region: NIPSNAP; pfam07978 318586002837 short chain dehydrogenase; Provisional; Region: PRK06138 318586002838 classical (c) SDRs; Region: SDR_c; cd05233 318586002839 NAD(P) binding site [chemical binding]; other site 318586002840 active site 318586002841 L-aspartate dehydrogenase; Provisional; Region: PRK13303 318586002842 pyrimidine utilization protein D; Region: RutD; TIGR03611 318586002843 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 318586002844 Cupin domain; Region: Cupin_2; cl09118 318586002845 choline dehydrogenase; Validated; Region: PRK02106 318586002846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586002847 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586002848 Proline racemase; Region: Pro_racemase; pfam05544 318586002849 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 318586002850 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318586002851 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586002852 DNA binding site [nucleotide binding] 318586002853 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 318586002854 putative dimerization interface [polypeptide binding]; other site 318586002855 putative ligand binding site [chemical binding]; other site 318586002856 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 318586002857 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 318586002858 dimer interface [polypeptide binding]; other site 318586002859 conserved gate region; other site 318586002860 putative PBP binding loops; other site 318586002861 ABC-ATPase subunit interface; other site 318586002862 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 318586002863 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 318586002864 dimer interface [polypeptide binding]; other site 318586002865 conserved gate region; other site 318586002866 putative PBP binding loops; other site 318586002867 ABC-ATPase subunit interface; other site 318586002868 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 318586002869 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 318586002870 Walker A/P-loop; other site 318586002871 ATP binding site [chemical binding]; other site 318586002872 Q-loop/lid; other site 318586002873 ABC transporter signature motif; other site 318586002874 Walker B; other site 318586002875 D-loop; other site 318586002876 H-loop/switch region; other site 318586002877 TOBE domain; Region: TOBE_2; cl01440 318586002878 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586002879 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 318586002880 NAD(P) binding site [chemical binding]; other site 318586002881 catalytic residues [active] 318586002882 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586002883 NAD(P) binding site [chemical binding]; other site 318586002884 catalytic residues [active] 318586002885 malonyl-CoA synthase; Validated; Region: PRK07514 318586002886 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586002887 putative deaminase; Validated; Region: PRK06846 318586002888 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 318586002889 active site 318586002890 Helix-turn-helix domains; Region: HTH; cl00088 318586002891 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 318586002892 dimerization interface [polypeptide binding]; other site 318586002893 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586002894 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 318586002895 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318586002896 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 318586002897 Flavin Reductases; Region: FlaRed; cl00801 318586002898 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318586002899 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 318586002900 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318586002901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586002902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586002903 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318586002904 NAD(P) binding site [chemical binding]; other site 318586002905 active site 318586002906 OsmC-like protein; Region: OsmC; cl00767 318586002907 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586002908 Helix-turn-helix domains; Region: HTH; cl00088 318586002909 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586002910 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 318586002911 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 318586002912 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586002913 catalytic residue [active] 318586002914 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586002915 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 318586002916 substrate binding pocket [chemical binding]; other site 318586002917 membrane-bound complex binding site; other site 318586002918 hinge residues; other site 318586002919 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 318586002920 dimer interface [polypeptide binding]; other site 318586002921 conserved gate region; other site 318586002922 putative PBP binding loops; other site 318586002923 ABC-ATPase subunit interface; other site 318586002924 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 318586002925 dimer interface [polypeptide binding]; other site 318586002926 conserved gate region; other site 318586002927 putative PBP binding loops; other site 318586002928 ABC-ATPase subunit interface; other site 318586002929 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586002930 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 318586002931 Walker A/P-loop; other site 318586002932 ATP binding site [chemical binding]; other site 318586002933 Q-loop/lid; other site 318586002934 ABC transporter signature motif; other site 318586002935 Walker B; other site 318586002936 D-loop; other site 318586002937 H-loop/switch region; other site 318586002938 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 318586002939 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586002940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586002941 Walker A/P-loop; other site 318586002942 ATP binding site [chemical binding]; other site 318586002943 Q-loop/lid; other site 318586002944 ABC transporter signature motif; other site 318586002945 Walker B; other site 318586002946 D-loop; other site 318586002947 H-loop/switch region; other site 318586002948 TOBE domain; Region: TOBE_2; cl01440 318586002949 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 318586002950 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318586002951 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 318586002952 dimer interface [polypeptide binding]; other site 318586002953 conserved gate region; other site 318586002954 putative PBP binding loops; other site 318586002955 ABC-ATPase subunit interface; other site 318586002956 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 318586002957 dimer interface [polypeptide binding]; other site 318586002958 conserved gate region; other site 318586002959 putative PBP binding loops; other site 318586002960 ABC-ATPase subunit interface; other site 318586002961 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586002962 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 318586002963 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586002964 VirB8 protein; Region: VirB8; cl01500 318586002965 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 318586002966 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586002967 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 318586002968 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 318586002969 Walker A/P-loop; other site 318586002970 ATP binding site [chemical binding]; other site 318586002971 Q-loop/lid; other site 318586002972 ABC transporter signature motif; other site 318586002973 Walker B; other site 318586002974 D-loop; other site 318586002975 H-loop/switch region; other site 318586002976 TOBE domain; Region: TOBE_2; cl01440 318586002977 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 318586002978 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 318586002979 dimer interface [polypeptide binding]; other site 318586002980 conserved gate region; other site 318586002981 putative PBP binding loops; other site 318586002982 ABC-ATPase subunit interface; other site 318586002983 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 318586002984 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 318586002985 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 318586002986 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 318586002987 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 318586002988 histidinol dehydrogenase; Region: hisD; TIGR00069 318586002989 NAD binding site [chemical binding]; other site 318586002990 dimerization interface [polypeptide binding]; other site 318586002991 product binding site; other site 318586002992 substrate binding site [chemical binding]; other site 318586002993 zinc binding site [ion binding]; other site 318586002994 catalytic residues [active] 318586002995 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 318586002996 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586002997 PYR/PP interface [polypeptide binding]; other site 318586002998 dimer interface [polypeptide binding]; other site 318586002999 TPP binding site [chemical binding]; other site 318586003000 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 318586003001 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; cd00568 318586003002 TPP-binding site [chemical binding]; other site 318586003003 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 318586003004 non-specific DNA binding site [nucleotide binding]; other site 318586003005 salt bridge; other site 318586003006 sequence-specific DNA binding site [nucleotide binding]; other site 318586003007 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 318586003008 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 318586003009 tetramer interface [polypeptide binding]; other site 318586003010 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 318586003011 choline dehydrogenase; Validated; Region: PRK02106 318586003012 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586003013 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 318586003014 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 318586003015 putative active site [active] 318586003016 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 318586003017 Helix-turn-helix domains; Region: HTH; cl00088 318586003018 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 318586003019 dimerization interface [polypeptide binding]; other site 318586003020 substrate binding pocket [chemical binding]; other site 318586003021 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 318586003022 metabolite-proton symporter; Region: 2A0106; TIGR00883 318586003023 putative substrate translocation pore; other site 318586003024 Heme NO binding; Region: HNOB; cl15268 318586003025 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 318586003026 dimer interface [polypeptide binding]; other site 318586003027 active site 318586003028 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586003029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586003030 DNA-binding site [nucleotide binding]; DNA binding site 318586003031 FCD domain; Region: FCD; cl11656 318586003032 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 318586003033 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 318586003034 NADP binding site [chemical binding]; other site 318586003035 dimer interface [polypeptide binding]; other site 318586003036 acyl-CoA synthetase; Validated; Region: PRK08162 318586003037 AMP-binding enzyme; Region: AMP-binding; cl15778 318586003038 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586003039 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 318586003040 active site residue [active] 318586003041 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 318586003042 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 318586003043 Na binding site [ion binding]; other site 318586003044 putative substrate binding site [chemical binding]; other site 318586003045 phenylhydantoinase; Validated; Region: PRK08323 318586003046 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 318586003047 tetramer interface [polypeptide binding]; other site 318586003048 active site 318586003049 allantoate amidohydrolase; Reviewed; Region: PRK12893 318586003050 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 318586003051 active site 318586003052 metal binding site [ion binding]; metal-binding site 318586003053 dimer interface [polypeptide binding]; other site 318586003054 FO synthase subunit 1; Reviewed; Region: cofG; PRK06245 318586003055 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 318586003056 FeS/SAM binding site; other site 318586003057 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit; Region: F420_cofH; TIGR03551 318586003058 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 318586003059 FeS/SAM binding site; other site 318586003060 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 318586003061 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 318586003062 phosphate binding site [ion binding]; other site 318586003063 dimer interface [polypeptide binding]; other site 318586003064 substrate binding site [chemical binding]; other site 318586003065 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 318586003066 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 318586003067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003068 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 318586003069 F420-dependent oxidoreductase, CPS_4043 family; Region: F420_CPS_4043; TIGR03842 318586003070 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 318586003071 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586003072 Helix-turn-helix domains; Region: HTH; cl00088 318586003073 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 318586003074 Domain of unknown function (DUF336); Region: DUF336; cl01249 318586003075 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 318586003076 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 318586003077 active site 318586003078 phosphorylation site [posttranslational modification] 318586003079 intermolecular recognition site; other site 318586003080 dimerization interface [polypeptide binding]; other site 318586003081 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 318586003082 dimerization interface [polypeptide binding]; other site 318586003083 DNA binding residues [nucleotide binding] 318586003084 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 318586003085 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 318586003086 ATP binding site [chemical binding]; other site 318586003087 Mg2+ binding site [ion binding]; other site 318586003088 G-X-G motif; other site 318586003089 MoxR-like ATPases [General function prediction only]; Region: COG0714 318586003090 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 318586003091 Walker A motif; other site 318586003092 ATP binding site [chemical binding]; other site 318586003093 Walker B motif; other site 318586003094 arginine finger; other site 318586003095 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 318586003096 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 318586003097 metal ion-dependent adhesion site (MIDAS); other site 318586003098 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 318586003099 Oxygen tolerance; Region: BatD; pfam13584 318586003100 short chain dehydrogenase; Provisional; Region: PRK06701 318586003101 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 318586003102 NAD binding site [chemical binding]; other site 318586003103 metal binding site [ion binding]; metal-binding site 318586003104 active site 318586003105 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 318586003106 dimerization interface [polypeptide binding]; other site 318586003107 metal binding site [ion binding]; metal-binding site 318586003108 RNA polymerase sigma factor; Provisional; Region: PRK12547 318586003109 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586003110 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 318586003111 Helix-turn-helix domain; Region: HTH_18; pfam12833 318586003112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586003113 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 318586003114 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 318586003115 N-terminal plug; other site 318586003116 ligand-binding site [chemical binding]; other site 318586003117 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 318586003118 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 318586003119 intersubunit interface [polypeptide binding]; other site 318586003120 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 318586003121 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 318586003122 ABC-ATPase subunit interface; other site 318586003123 dimer interface [polypeptide binding]; other site 318586003124 putative PBP binding regions; other site 318586003125 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 318586003126 ABC-ATPase subunit interface; other site 318586003127 dimer interface [polypeptide binding]; other site 318586003128 putative PBP binding regions; other site 318586003129 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 318586003130 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 318586003131 Walker A/P-loop; other site 318586003132 ATP binding site [chemical binding]; other site 318586003133 Q-loop/lid; other site 318586003134 ABC transporter signature motif; other site 318586003135 Walker B; other site 318586003136 D-loop; other site 318586003137 H-loop/switch region; other site 318586003138 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586003139 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586003140 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 318586003141 Walker A/P-loop; other site 318586003142 ATP binding site [chemical binding]; other site 318586003143 Q-loop/lid; other site 318586003144 ABC transporter signature motif; other site 318586003145 Walker B; other site 318586003146 D-loop; other site 318586003147 H-loop/switch region; other site 318586003148 Ribbon-helix-helix domain; Region: RHH_4; cl01775 318586003149 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 318586003150 intracellular protease, PfpI family; Region: PfpI; TIGR01382 318586003151 conserved cys residue [active] 318586003152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586003153 Helix-turn-helix domains; Region: HTH; cl00088 318586003154 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 318586003155 dimerization interface [polypeptide binding]; other site 318586003156 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 318586003157 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586003158 substrate binding pocket [chemical binding]; other site 318586003159 membrane-bound complex binding site; other site 318586003160 hinge residues; other site 318586003161 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 318586003162 dimer interface [polypeptide binding]; other site 318586003163 conserved gate region; other site 318586003164 putative PBP binding loops; other site 318586003165 ABC-ATPase subunit interface; other site 318586003166 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586003167 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 318586003168 dimer interface [polypeptide binding]; other site 318586003169 conserved gate region; other site 318586003170 putative PBP binding loops; other site 318586003171 ABC-ATPase subunit interface; other site 318586003172 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586003173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003174 Walker A/P-loop; other site 318586003175 ATP binding site [chemical binding]; other site 318586003176 Q-loop/lid; other site 318586003177 ABC transporter signature motif; other site 318586003178 Walker B; other site 318586003179 D-loop; other site 318586003180 H-loop/switch region; other site 318586003181 Arginase family; Region: Arginase; cl00306 318586003182 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586003183 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 318586003184 Walker A/P-loop; other site 318586003185 ATP binding site [chemical binding]; other site 318586003186 Q-loop/lid; other site 318586003187 ABC transporter signature motif; other site 318586003188 Walker B; other site 318586003189 D-loop; other site 318586003190 H-loop/switch region; other site 318586003191 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 318586003192 active site 318586003193 homotetramer interface [polypeptide binding]; other site 318586003194 homodimer interface [polypeptide binding]; other site 318586003195 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 318586003196 Recombinase; Region: Recombinase; pfam07508 318586003197 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 318586003198 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 318586003199 Domain of unknown function (DUF364); Region: DUF364; pfam04016 318586003200 HPP family; Region: HPP; pfam04982 318586003201 formate dehydrogenase; Provisional; Region: PRK07574 318586003202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003203 Arginase family; Region: Arginase; cl00306 318586003204 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 318586003205 nudix motif; other site 318586003206 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 318586003207 putative substrate translocation pore; other site 318586003208 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 318586003209 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 318586003210 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 318586003211 putative ligand binding residues [chemical binding]; other site 318586003212 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 318586003213 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 318586003214 ABC-ATPase subunit interface; other site 318586003215 dimer interface [polypeptide binding]; other site 318586003216 putative PBP binding regions; other site 318586003217 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586003218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003219 Walker A/P-loop; other site 318586003220 ATP binding site [chemical binding]; other site 318586003221 Q-loop/lid; other site 318586003222 ABC transporter signature motif; other site 318586003223 Walker B; other site 318586003224 D-loop; other site 318586003225 H-loop/switch region; other site 318586003226 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318586003227 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 318586003228 N-terminal plug; other site 318586003229 ligand-binding site [chemical binding]; other site 318586003230 TOBE domain; Region: TOBE_2; cl01440 318586003231 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 318586003232 Helix-turn-helix domains; Region: HTH; cl00088 318586003233 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 318586003234 dimerizarion interface [polypeptide binding]; other site 318586003235 CrgA pocket; other site 318586003236 substrate binding pocket [chemical binding]; other site 318586003237 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 318586003238 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 318586003239 octamer interface [polypeptide binding]; other site 318586003240 active site 318586003241 Muconolactone delta-isomerase; Region: MIase; cl01992 318586003242 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 318586003243 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 318586003244 dimer interface [polypeptide binding]; other site 318586003245 active site 318586003246 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 318586003247 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 318586003248 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 318586003249 putative alpha subunit interface [polypeptide binding]; other site 318586003250 putative active site [active] 318586003251 putative substrate binding site [chemical binding]; other site 318586003252 Fe binding site [ion binding]; other site 318586003253 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 318586003254 inter-subunit interface; other site 318586003255 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 318586003256 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 318586003257 catalytic loop [active] 318586003258 iron binding site [ion binding]; other site 318586003259 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 318586003260 FAD binding pocket [chemical binding]; other site 318586003261 FAD binding motif [chemical binding]; other site 318586003262 phosphate binding motif [ion binding]; other site 318586003263 beta-alpha-beta structure motif; other site 318586003264 NAD binding pocket [chemical binding]; other site 318586003265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003266 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586003267 NAD(P) binding site [chemical binding]; other site 318586003268 active site 318586003269 benzoate transport; Region: 2A0115; TIGR00895 318586003270 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 318586003271 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 318586003272 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 318586003273 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586003274 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586003275 DNA-binding site [nucleotide binding]; DNA binding site 318586003276 FCD domain; Region: FCD; cl11656 318586003277 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 318586003278 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 318586003279 ornithine cyclodeaminase; Validated; Region: PRK06141 318586003280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003281 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 318586003282 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 318586003283 NAD binding site [chemical binding]; other site 318586003284 catalytic Zn binding site [ion binding]; other site 318586003285 structural Zn binding site [ion binding]; other site 318586003286 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 318586003287 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 318586003288 metal binding site [ion binding]; metal-binding site 318586003289 substrate binding pocket [chemical binding]; other site 318586003290 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 318586003291 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 318586003292 FAD binding pocket [chemical binding]; other site 318586003293 FAD binding motif [chemical binding]; other site 318586003294 phosphate binding motif [ion binding]; other site 318586003295 beta-alpha-beta structure motif; other site 318586003296 NAD binding pocket [chemical binding]; other site 318586003297 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 318586003298 catalytic loop [active] 318586003299 iron binding site [ion binding]; other site 318586003300 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 318586003301 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 318586003302 [2Fe-2S] cluster binding site [ion binding]; other site 318586003303 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 318586003304 putative alpha subunit interface [polypeptide binding]; other site 318586003305 putative active site [active] 318586003306 putative substrate binding site [chemical binding]; other site 318586003307 Fe binding site [ion binding]; other site 318586003308 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 318586003309 Helix-turn-helix domains; Region: HTH; cl00088 318586003310 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 318586003311 dimerization interface [polypeptide binding]; other site 318586003312 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 318586003313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003315 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 318586003316 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 318586003317 Walker A/P-loop; other site 318586003318 ATP binding site [chemical binding]; other site 318586003319 Q-loop/lid; other site 318586003320 ABC transporter signature motif; other site 318586003321 Walker B; other site 318586003322 D-loop; other site 318586003323 H-loop/switch region; other site 318586003324 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 318586003325 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586003326 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 318586003327 dimer interface [polypeptide binding]; other site 318586003328 conserved gate region; other site 318586003329 putative PBP binding loops; other site 318586003330 ABC-ATPase subunit interface; other site 318586003331 NMT1-like family; Region: NMT1_2; cl15260 318586003332 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318586003333 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586003334 Helix-turn-helix domains; Region: HTH; cl00088 318586003335 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 318586003336 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 318586003337 putative active site [active] 318586003338 putative FMN binding site [chemical binding]; other site 318586003339 putative substrate binding site [chemical binding]; other site 318586003340 putative catalytic residue [active] 318586003341 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586003342 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318586003343 Helix-turn-helix domains; Region: HTH; cl00088 318586003344 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 318586003345 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 318586003346 metal binding site [ion binding]; metal-binding site 318586003347 putative dimer interface [polypeptide binding]; other site 318586003348 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 318586003349 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 318586003350 catalytic residues [active] 318586003351 catalytic nucleophile [active] 318586003352 Presynaptic Site I dimer interface [polypeptide binding]; other site 318586003353 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318586003354 Synaptic Flat tetramer interface [polypeptide binding]; other site 318586003355 Synaptic Site I dimer interface [polypeptide binding]; other site 318586003356 DNA binding site [nucleotide binding] 318586003357 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 318586003358 DNA-binding interface [nucleotide binding]; DNA binding site 318586003359 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 318586003360 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 318586003361 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 318586003362 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586003363 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003364 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 318586003365 UreF; Region: UreF; pfam01730 318586003366 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 318586003367 dimer interface [polypeptide binding]; other site 318586003368 catalytic residues [active] 318586003369 urease subunit alpha; Reviewed; Region: ureC; PRK13207 318586003370 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 318586003371 subunit interactions [polypeptide binding]; other site 318586003372 active site 318586003373 flap region; other site 318586003374 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 318586003375 gamma-beta subunit interface [polypeptide binding]; other site 318586003376 alpha-beta subunit interface [polypeptide binding]; other site 318586003377 HupE / UreJ protein; Region: HupE_UreJ; cl01011 318586003378 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 318586003379 alpha-gamma subunit interface [polypeptide binding]; other site 318586003380 beta-gamma subunit interface [polypeptide binding]; other site 318586003381 UreD urease accessory protein; Region: UreD; cl00530 318586003382 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 318586003383 dimerization interface [polypeptide binding]; other site 318586003384 putative DNA binding site [nucleotide binding]; other site 318586003385 putative Zn2+ binding site [ion binding]; other site 318586003386 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 318586003387 putative hydrophobic ligand binding site [chemical binding]; other site 318586003388 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 318586003389 hydrophobic ligand binding site; other site 318586003390 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 318586003391 putative hydrophobic ligand binding site [chemical binding]; other site 318586003392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 318586003393 Protein of unknown function (DUF419); Region: DUF419; cl15265 318586003394 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 318586003395 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586003396 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586003397 oxaloacetate decarboxylase; Provisional; Region: PRK12330 318586003398 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 318586003399 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 318586003400 active site 318586003401 DNA binding site [nucleotide binding] 318586003402 Int/Topo IB signature motif; other site 318586003403 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 318586003404 non-specific DNA binding site [nucleotide binding]; other site 318586003405 salt bridge; other site 318586003406 sequence-specific DNA binding site [nucleotide binding]; other site 318586003407 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 318586003408 HI0933-like protein; Region: HI0933_like; pfam03486 318586003409 NeuB family; Region: NeuB; cl00496 318586003410 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318586003411 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 318586003412 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 318586003413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003414 Walker A/P-loop; other site 318586003415 ATP binding site [chemical binding]; other site 318586003416 Q-loop/lid; other site 318586003417 ABC transporter signature motif; other site 318586003418 Walker B; other site 318586003419 D-loop; other site 318586003420 H-loop/switch region; other site 318586003421 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 318586003422 ligand binding site [chemical binding]; other site 318586003423 active site 318586003424 Peptidase M15; Region: Peptidase_M15_3; cl01194 318586003425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 318586003426 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586003427 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586003428 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 318586003429 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 318586003430 trimer interface [polypeptide binding]; other site 318586003431 active site 318586003432 UDP-GlcNAc binding site [chemical binding]; other site 318586003433 lipid binding site [chemical binding]; lipid-binding site 318586003434 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318586003435 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 318586003436 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 318586003437 dimer interface [polypeptide binding]; other site 318586003438 active site 318586003439 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586003440 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 318586003441 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 318586003442 active site 318586003443 intersubunit interface [polypeptide binding]; other site 318586003444 catalytic residue [active] 318586003445 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 318586003446 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 318586003447 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 318586003448 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586003449 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586003450 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 318586003451 dimer interface [polypeptide binding]; other site 318586003452 conserved gate region; other site 318586003453 putative PBP binding loops; other site 318586003454 ABC-ATPase subunit interface; other site 318586003455 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 318586003456 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 318586003457 dimer interface [polypeptide binding]; other site 318586003458 conserved gate region; other site 318586003459 ABC-ATPase subunit interface; other site 318586003460 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 318586003461 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 318586003462 Walker A/P-loop; other site 318586003463 ATP binding site [chemical binding]; other site 318586003464 Q-loop/lid; other site 318586003465 ABC transporter signature motif; other site 318586003466 Walker B; other site 318586003467 D-loop; other site 318586003468 H-loop/switch region; other site 318586003469 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586003470 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 318586003471 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 318586003472 Walker A/P-loop; other site 318586003473 ATP binding site [chemical binding]; other site 318586003474 Q-loop/lid; other site 318586003475 ABC transporter signature motif; other site 318586003476 Walker B; other site 318586003477 D-loop; other site 318586003478 H-loop/switch region; other site 318586003479 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 318586003480 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586003481 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 318586003482 NAD(P) binding site [chemical binding]; other site 318586003483 catalytic residues [active] 318586003484 catalytic residues [active] 318586003485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003486 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586003487 NAD(P) binding site [chemical binding]; other site 318586003488 active site 318586003489 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 318586003490 ABC-ATPase subunit interface; other site 318586003491 dimer interface [polypeptide binding]; other site 318586003492 putative PBP binding regions; other site 318586003493 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 318586003494 ABC-ATPase subunit interface; other site 318586003495 dimer interface [polypeptide binding]; other site 318586003496 putative PBP binding regions; other site 318586003497 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 318586003498 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 318586003499 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 318586003500 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 318586003501 metal binding site [ion binding]; metal-binding site 318586003502 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 318586003503 metal binding site 2 [ion binding]; metal-binding site 318586003504 putative DNA binding helix; other site 318586003505 metal binding site 1 [ion binding]; metal-binding site 318586003506 structural Zn2+ binding site [ion binding]; other site 318586003507 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 318586003508 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 318586003509 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 318586003510 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 318586003511 putative active site [active] 318586003512 catalytic residue [active] 318586003513 Clp protease; Region: CLP_protease; pfam00574 318586003514 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 318586003515 oligomer interface [polypeptide binding]; other site 318586003516 active site residues [active] 318586003517 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 318586003518 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 318586003519 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 318586003520 Walker A motif; other site 318586003521 ATP binding site [chemical binding]; other site 318586003522 Walker B motif; other site 318586003523 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318586003524 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 318586003525 mce related protein; Region: MCE; pfam02470 318586003526 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 318586003527 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586003528 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 318586003529 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318586003530 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586003531 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 318586003532 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 318586003533 carboxyltransferase (CT) interaction site; other site 318586003534 biotinylation site [posttranslational modification]; other site 318586003535 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318586003536 putative acyl-acceptor binding pocket; other site 318586003537 EamA-like transporter family; Region: EamA; cl01037 318586003538 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318586003539 transketolase; Reviewed; Region: PRK05899 318586003540 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 318586003541 TPP-binding site [chemical binding]; other site 318586003542 dimer interface [polypeptide binding]; other site 318586003543 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 318586003544 PYR/PP interface [polypeptide binding]; other site 318586003545 dimer interface [polypeptide binding]; other site 318586003546 TPP binding site [chemical binding]; other site 318586003547 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318586003548 xanthine permease; Region: pbuX; TIGR03173 318586003549 hypothetical protein; Provisional; Region: PRK11573 318586003550 Domain of unknown function DUF21; Region: DUF21; pfam01595 318586003551 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 318586003552 Transporter associated domain; Region: CorC_HlyC; cl08393 318586003553 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 318586003554 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 318586003555 active site 318586003556 DNA binding site [nucleotide binding] 318586003557 Int/Topo IB signature motif; other site 318586003558 shikimate kinase; Provisional; Region: PRK13946 318586003559 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 318586003560 ADP binding site [chemical binding]; other site 318586003561 magnesium binding site [ion binding]; other site 318586003562 putative shikimate binding site; other site 318586003563 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 318586003564 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 318586003565 active site 318586003566 dimer interface [polypeptide binding]; other site 318586003567 metal binding site [ion binding]; metal-binding site 318586003568 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 318586003569 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 318586003570 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 318586003571 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 318586003572 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318586003573 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 318586003574 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 318586003575 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 318586003576 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318586003577 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318586003578 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318586003579 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 318586003580 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 318586003581 dimer interface [polypeptide binding]; other site 318586003582 active site 318586003583 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318586003584 catalytic residues [active] 318586003585 substrate binding site [chemical binding]; other site 318586003586 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318586003587 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 318586003588 AMP-binding enzyme; Region: AMP-binding; cl15778 318586003589 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 318586003590 trimer interface [polypeptide binding]; other site 318586003591 active site 318586003592 substrate binding site [chemical binding]; other site 318586003593 CoA binding site [chemical binding]; other site 318586003594 Protein of unknown function (DUF563); Region: DUF563; cl15705 318586003595 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 318586003596 active site 318586003597 catalytic triad [active] 318586003598 oxyanion hole [active] 318586003599 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 318586003600 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 318586003601 inhibitor-cofactor binding pocket; inhibition site 318586003602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586003603 catalytic residue [active] 318586003604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003605 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 318586003606 NAD(P) binding site [chemical binding]; other site 318586003607 active site 318586003608 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 318586003609 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 318586003610 NADP-binding site; other site 318586003611 homotetramer interface [polypeptide binding]; other site 318586003612 substrate binding site [chemical binding]; other site 318586003613 homodimer interface [polypeptide binding]; other site 318586003614 active site 318586003615 prolyl-tRNA synthetase; Provisional; Region: PRK12325 318586003616 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 318586003617 dimer interface [polypeptide binding]; other site 318586003618 motif 1; other site 318586003619 active site 318586003620 motif 2; other site 318586003621 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 318586003622 active site 318586003623 motif 3; other site 318586003624 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 318586003625 anticodon binding site; other site 318586003626 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 318586003627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003628 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 318586003629 polyphosphate kinase; Provisional; Region: PRK05443 318586003630 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 318586003631 putative domain interface [polypeptide binding]; other site 318586003632 putative active site [active] 318586003633 catalytic site [active] 318586003634 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 318586003635 putative active site [active] 318586003636 putative domain interface [polypeptide binding]; other site 318586003637 catalytic site [active] 318586003638 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 318586003639 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 318586003640 active site 318586003641 dimer interface [polypeptide binding]; other site 318586003642 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318586003643 AAA domain; Region: AAA_31; pfam13614 318586003644 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 318586003645 P-loop; other site 318586003646 Magnesium ion binding site [ion binding]; other site 318586003647 Potato inhibitor I family; Region: potato_inhibit; cl15459 318586003648 excinuclease ABC subunit B; Provisional; Region: PRK05298 318586003649 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 318586003650 ATP binding site [chemical binding]; other site 318586003651 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 318586003652 nucleotide binding region [chemical binding]; other site 318586003653 ATP-binding site [chemical binding]; other site 318586003654 Ultra-violet resistance protein B; Region: UvrB; pfam12344 318586003655 UvrB/uvrC motif; Region: UVR; pfam02151 318586003656 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 318586003657 sensor protein PhoQ; Provisional; Region: PRK10815 318586003658 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 318586003659 ATP binding site [chemical binding]; other site 318586003660 Mg2+ binding site [ion binding]; other site 318586003661 G-X-G motif; other site 318586003662 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318586003663 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 318586003664 active site 318586003665 phosphorylation site [posttranslational modification] 318586003666 intermolecular recognition site; other site 318586003667 dimerization interface [polypeptide binding]; other site 318586003668 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 318586003669 DNA binding site [nucleotide binding] 318586003670 Predicted membrane protein [Function unknown]; Region: COG3212 318586003671 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 318586003672 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 318586003673 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 318586003674 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 318586003675 Ligand binding site; other site 318586003676 DXD motif; other site 318586003677 OpgC protein; Region: OpgC_C; cl00792 318586003678 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 318586003679 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 318586003680 Potassium binding sites [ion binding]; other site 318586003681 Cesium cation binding sites [ion binding]; other site 318586003682 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 318586003683 active site 318586003684 (T/H)XGH motif; other site 318586003685 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586003686 tellurite resistance protein terB; Region: terB; cd07176 318586003687 putative metal binding site [ion binding]; other site 318586003688 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 318586003689 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586003690 active site 318586003691 nucleotide binding site [chemical binding]; other site 318586003692 HIGH motif; other site 318586003693 KMSKS motif; other site 318586003694 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318586003695 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 318586003696 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 318586003697 Walker A/P-loop; other site 318586003698 ATP binding site [chemical binding]; other site 318586003699 Q-loop/lid; other site 318586003700 ABC transporter signature motif; other site 318586003701 Walker B; other site 318586003702 D-loop; other site 318586003703 H-loop/switch region; other site 318586003704 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586003705 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 318586003706 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 318586003707 Walker A/P-loop; other site 318586003708 ATP binding site [chemical binding]; other site 318586003709 Q-loop/lid; other site 318586003710 ABC transporter signature motif; other site 318586003711 Walker B; other site 318586003712 D-loop; other site 318586003713 H-loop/switch region; other site 318586003714 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586003715 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 318586003716 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 318586003717 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 318586003718 dimer interface [polypeptide binding]; other site 318586003719 conserved gate region; other site 318586003720 putative PBP binding loops; other site 318586003721 ABC-ATPase subunit interface; other site 318586003722 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 318586003723 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 318586003724 dimer interface [polypeptide binding]; other site 318586003725 conserved gate region; other site 318586003726 putative PBP binding loops; other site 318586003727 ABC-ATPase subunit interface; other site 318586003728 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 318586003729 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 318586003730 peptide binding site [polypeptide binding]; other site 318586003731 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 318586003732 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 318586003733 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586003734 active site 318586003735 HIGH motif; other site 318586003736 nucleotide binding site [chemical binding]; other site 318586003737 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 318586003738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003739 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 318586003740 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318586003741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586003742 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 318586003743 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003744 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 318586003745 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 318586003746 catalytic motif [active] 318586003747 Zn binding site [ion binding]; other site 318586003748 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 318586003749 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 318586003750 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 318586003751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003752 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 318586003753 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 318586003754 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_3; cd08490 318586003755 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586003756 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586003757 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 318586003758 dimer interface [polypeptide binding]; other site 318586003759 conserved gate region; other site 318586003760 putative PBP binding loops; other site 318586003761 ABC-ATPase subunit interface; other site 318586003762 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 318586003763 dimer interface [polypeptide binding]; other site 318586003764 conserved gate region; other site 318586003765 putative PBP binding loops; other site 318586003766 ABC-ATPase subunit interface; other site 318586003767 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 318586003768 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 318586003769 Walker A/P-loop; other site 318586003770 ATP binding site [chemical binding]; other site 318586003771 Q-loop/lid; other site 318586003772 ABC transporter signature motif; other site 318586003773 Walker B; other site 318586003774 D-loop; other site 318586003775 H-loop/switch region; other site 318586003776 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586003777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003778 Walker A/P-loop; other site 318586003779 ATP binding site [chemical binding]; other site 318586003780 Q-loop/lid; other site 318586003781 ABC transporter signature motif; other site 318586003782 Walker B; other site 318586003783 D-loop; other site 318586003784 H-loop/switch region; other site 318586003785 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 318586003786 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 318586003787 tetramer interface [polypeptide binding]; other site 318586003788 active site 318586003789 Mg2+/Mn2+ binding site [ion binding]; other site 318586003790 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 318586003791 Citrate synthase; Region: Citrate_synt; pfam00285 318586003792 oxalacetate binding site [chemical binding]; other site 318586003793 citrylCoA binding site [chemical binding]; other site 318586003794 coenzyme A binding site [chemical binding]; other site 318586003795 catalytic triad [active] 318586003796 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 318586003797 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 318586003798 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318586003799 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 318586003800 sequence-specific DNA binding site [nucleotide binding]; other site 318586003801 salt bridge; other site 318586003802 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 318586003803 Domain of unknown function (DUF955); Region: DUF955; cl01076 318586003804 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 318586003805 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 318586003806 active site 2 [active] 318586003807 active site 1 [active] 318586003808 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 318586003809 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 318586003810 methionine synthase; Provisional; Region: PRK01207 318586003811 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 318586003812 substrate binding site [chemical binding]; other site 318586003813 THF binding site; other site 318586003814 zinc-binding site [ion binding]; other site 318586003815 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318586003816 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 318586003817 S-adenosylmethionine binding site [chemical binding]; other site 318586003818 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318586003819 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586003820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003821 Walker A/P-loop; other site 318586003822 ATP binding site [chemical binding]; other site 318586003823 Q-loop/lid; other site 318586003824 ABC transporter signature motif; other site 318586003825 Walker B; other site 318586003826 D-loop; other site 318586003827 H-loop/switch region; other site 318586003828 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 318586003829 dimer interface [polypeptide binding]; other site 318586003830 putative PBP binding regions; other site 318586003831 ABC-ATPase subunit interface; other site 318586003832 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 318586003833 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 318586003834 putative ligand binding residues [chemical binding]; other site 318586003835 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 318586003836 tetramer interface [polypeptide binding]; other site 318586003837 active site 318586003838 Mg2+/Mn2+ binding site [ion binding]; other site 318586003839 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 318586003840 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 318586003841 malate synthase A; Region: malate_syn_A; TIGR01344 318586003842 active site 318586003843 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 318586003844 non-specific DNA binding site [nucleotide binding]; other site 318586003845 salt bridge; other site 318586003846 sequence-specific DNA binding site [nucleotide binding]; other site 318586003847 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 318586003848 Domain of unknown function (DUF955); Region: DUF955; cl01076 318586003849 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 318586003850 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 318586003851 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 318586003852 intersubunit interface [polypeptide binding]; other site 318586003853 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 318586003854 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 318586003855 N-terminal plug; other site 318586003856 ligand-binding site [chemical binding]; other site 318586003857 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 318586003858 putative active site [active] 318586003859 putative metal binding site [ion binding]; other site 318586003860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003861 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318586003862 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318586003863 active site 318586003864 metal binding site [ion binding]; metal-binding site 318586003865 lipoyl synthase; Provisional; Region: PRK05481 318586003866 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 318586003867 FeS/SAM binding site; other site 318586003868 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 318586003869 catalytic triad [active] 318586003870 dimer interface [polypeptide binding]; other site 318586003871 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 318586003872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003873 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 318586003874 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 318586003875 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 318586003876 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 318586003877 protein binding site [polypeptide binding]; other site 318586003878 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 318586003879 protein binding site [polypeptide binding]; other site 318586003880 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 318586003881 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 318586003882 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 318586003883 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 318586003884 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 318586003885 TSCPD domain; Region: TSCPD; cl14834 318586003886 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 318586003887 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 318586003888 MgtE intracellular N domain; Region: MgtE_N; cl15244 318586003889 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 318586003890 Divalent cation transporter; Region: MgtE; cl00786 318586003891 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 318586003892 active site 318586003893 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 318586003894 non-specific DNA binding site [nucleotide binding]; other site 318586003895 salt bridge; other site 318586003896 sequence-specific DNA binding site [nucleotide binding]; other site 318586003897 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 318586003898 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 318586003899 NAD(P) binding site [chemical binding]; other site 318586003900 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 318586003901 BolA-like protein; Region: BolA; cl00386 318586003902 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 318586003903 putative GSH binding site [chemical binding]; other site 318586003904 catalytic residues [active] 318586003905 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 318586003906 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 318586003907 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586003908 catalytic residue [active] 318586003909 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 318586003910 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 318586003911 catalytic triad [active] 318586003912 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 318586003913 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318586003914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003915 FAD dependent oxidoreductase; Region: DAO; pfam01266 318586003916 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 318586003917 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 318586003918 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318586003919 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 318586003920 synthetase active site [active] 318586003921 NTP binding site [chemical binding]; other site 318586003922 metal binding site [ion binding]; metal-binding site 318586003923 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 318586003924 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318586003925 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 318586003926 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; cl00233 318586003927 catalytic center binding site [active] 318586003928 ATP binding site [chemical binding]; other site 318586003929 Uncharacterized conserved protein [Function unknown]; Region: COG1432 318586003930 LabA_like proteins; Region: LabA; cd10911 318586003931 putative metal binding site [ion binding]; other site 318586003932 hypothetical protein; Validated; Region: PRK09039 318586003933 hypothetical protein; Validated; Region: PRK09039 318586003934 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318586003935 ligand binding site [chemical binding]; other site 318586003936 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 318586003937 putative active site pocket [active] 318586003938 dimerization interface [polypeptide binding]; other site 318586003939 putative catalytic residue [active] 318586003940 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 318586003941 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 318586003942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586003943 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 318586003944 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 318586003945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586003946 homodimer interface [polypeptide binding]; other site 318586003947 catalytic residue [active] 318586003948 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 318586003949 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 318586003950 catalytic residues [active] 318586003951 central insert; other site 318586003952 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 318586003953 CcmB protein; Region: CcmB; cl01016 318586003954 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 318586003955 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003956 Walker A/P-loop; other site 318586003957 ATP binding site [chemical binding]; other site 318586003958 Q-loop/lid; other site 318586003959 ABC transporter signature motif; other site 318586003960 Walker B; other site 318586003961 D-loop; other site 318586003962 H-loop/switch region; other site 318586003963 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 318586003964 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 318586003965 Protein export membrane protein; Region: SecD_SecF; cl14618 318586003966 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 318586003967 Protein export membrane protein; Region: SecD_SecF; cl14618 318586003968 Preprotein translocase subunit; Region: YajC; cl00806 318586003969 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 318586003970 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 318586003971 homodimer interface [polypeptide binding]; other site 318586003972 metal binding site [ion binding]; metal-binding site 318586003973 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 318586003974 homodimer interface [polypeptide binding]; other site 318586003975 active site 318586003976 putative chemical substrate binding site [chemical binding]; other site 318586003977 metal binding site [ion binding]; metal-binding site 318586003978 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586003979 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 318586003980 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 318586003981 FMN binding site [chemical binding]; other site 318586003982 active site 318586003983 catalytic residues [active] 318586003984 substrate binding site [chemical binding]; other site 318586003985 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 318586003986 active site 318586003987 DNA binding site [nucleotide binding] 318586003988 Int/Topo IB signature motif; other site 318586003989 Helix-turn-helix domains; Region: HTH; cl00088 318586003990 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 318586003991 tellurite resistance protein TehB; Provisional; Region: PRK11207 318586003992 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 318586003993 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586003994 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586003995 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586003996 Walker A/P-loop; other site 318586003997 ATP binding site [chemical binding]; other site 318586003998 Q-loop/lid; other site 318586003999 ABC transporter signature motif; other site 318586004000 Walker B; other site 318586004001 D-loop; other site 318586004002 H-loop/switch region; other site 318586004003 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586004004 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586004005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004006 Walker A/P-loop; other site 318586004007 ATP binding site [chemical binding]; other site 318586004008 Q-loop/lid; other site 318586004009 ABC transporter signature motif; other site 318586004010 Walker B; other site 318586004011 D-loop; other site 318586004012 H-loop/switch region; other site 318586004013 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 318586004014 N-terminal plug; other site 318586004015 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586004016 ligand-binding site [chemical binding]; other site 318586004017 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586004018 LysE type translocator; Region: LysE; cl00565 318586004019 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586004020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586004021 DNA-binding site [nucleotide binding]; DNA binding site 318586004022 FCD domain; Region: FCD; cl11656 318586004023 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 318586004024 biotin synthase; Region: bioB; TIGR00433 318586004025 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 318586004026 FeS/SAM binding site; other site 318586004027 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 318586004028 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 318586004029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586004030 DNA-binding site [nucleotide binding]; DNA binding site 318586004031 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 318586004032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586004033 homodimer interface [polypeptide binding]; other site 318586004034 catalytic residue [active] 318586004035 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 318586004036 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 318586004037 catalytic triad [active] 318586004038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 318586004039 MOSC domain; Region: MOSC; pfam03473 318586004040 3-alpha domain; Region: 3-alpha; pfam03475 318586004041 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 318586004042 pyridoxal binding site [chemical binding]; other site 318586004043 dimer interface [polypeptide binding]; other site 318586004044 ATP binding site [chemical binding]; other site 318586004045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004046 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 318586004047 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 318586004048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004049 Walker A/P-loop; other site 318586004050 ATP binding site [chemical binding]; other site 318586004051 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 318586004052 putative active site [active] 318586004053 putative metal-binding site [ion binding]; other site 318586004054 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 318586004055 CoenzymeA binding site [chemical binding]; other site 318586004056 subunit interaction site [polypeptide binding]; other site 318586004057 PHB binding site; other site 318586004058 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 318586004059 Cupin domain; Region: Cupin_2; cl09118 318586004060 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 318586004061 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586004062 putative substrate translocation pore; other site 318586004063 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 318586004064 substrate binding site [chemical binding]; other site 318586004065 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 318586004066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004067 AAA domain; Region: AAA_28; pfam13521 318586004068 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 318586004069 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 318586004070 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 318586004071 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 318586004072 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586004073 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 318586004074 putative dimer interface [polypeptide binding]; other site 318586004075 N-terminal domain interface [polypeptide binding]; other site 318586004076 putative substrate binding pocket (H-site) [chemical binding]; other site 318586004077 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 318586004078 Helix-turn-helix domains; Region: HTH; cl00088 318586004079 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 318586004080 Cupin domain; Region: Cupin_2; cl09118 318586004081 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 318586004082 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 318586004083 putative catalytic residue [active] 318586004084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586004085 Coenzyme A binding pocket [chemical binding]; other site 318586004086 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586004087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586004088 Coenzyme A binding pocket [chemical binding]; other site 318586004089 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318586004090 Helix-turn-helix domains; Region: HTH; cl00088 318586004091 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 318586004092 dimerization interface [polypeptide binding]; other site 318586004093 substrate binding pocket [chemical binding]; other site 318586004094 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; cd00449 318586004095 homodimer interface [polypeptide binding]; other site 318586004096 substrate-cofactor binding pocket; other site 318586004097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586004098 catalytic residue [active] 318586004099 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318586004100 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318586004101 Helix-turn-helix domain; Region: HTH_18; pfam12833 318586004102 LysE type translocator; Region: LysE; cl00565 318586004103 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 318586004104 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 318586004105 Helix-turn-helix domains; Region: HTH; cl00088 318586004106 AsnC family; Region: AsnC_trans_reg; pfam01037 318586004107 LysE type translocator; Region: LysE; cl00565 318586004108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586004109 Helix-turn-helix domains; Region: HTH; cl00088 318586004110 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 318586004111 dimerization interface [polypeptide binding]; other site 318586004112 substrate binding pocket [chemical binding]; other site 318586004113 TPR repeat; Region: TPR_11; pfam13414 318586004114 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 318586004115 binding surface 318586004116 TPR motif; other site 318586004117 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 318586004118 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 318586004119 S-adenosylmethionine binding site [chemical binding]; other site 318586004120 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 318586004121 putative active site [active] 318586004122 putative catalytic site [active] 318586004123 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 318586004124 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 318586004125 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 318586004126 VirB7 interaction site; other site 318586004127 VirB8 protein; Region: VirB8; cl01500 318586004128 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 318586004129 conjugal transfer protein TrbL; Provisional; Region: PRK13875 318586004130 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 318586004131 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 318586004132 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 318586004133 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 318586004134 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 318586004135 TrbC/VIRB2 family; Region: TrbC; cl01583 318586004136 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 318586004137 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004138 Walker A motif; other site 318586004139 ATP binding site [chemical binding]; other site 318586004140 Walker B motif; other site 318586004141 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586004142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586004143 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586004144 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 318586004145 N-terminal plug; other site 318586004146 ligand-binding site [chemical binding]; other site 318586004147 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 318586004148 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318586004149 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586004150 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 318586004151 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004152 Walker A/P-loop; other site 318586004153 ATP binding site [chemical binding]; other site 318586004154 Q-loop/lid; other site 318586004155 ABC transporter signature motif; other site 318586004156 Walker B; other site 318586004157 D-loop; other site 318586004158 H-loop/switch region; other site 318586004159 Helix-turn-helix domains; Region: HTH; cl00088 318586004160 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586004161 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586004162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004163 Walker A/P-loop; other site 318586004164 ATP binding site [chemical binding]; other site 318586004165 Q-loop/lid; other site 318586004166 ABC transporter signature motif; other site 318586004167 Walker B; other site 318586004168 D-loop; other site 318586004169 H-loop/switch region; other site 318586004170 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586004171 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586004172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004173 Walker A/P-loop; other site 318586004174 ATP binding site [chemical binding]; other site 318586004175 Q-loop/lid; other site 318586004176 ABC transporter signature motif; other site 318586004177 Walker B; other site 318586004178 D-loop; other site 318586004179 H-loop/switch region; other site 318586004180 hypothetical protein; Provisional; Region: PRK07588 318586004181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004183 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586004184 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 318586004185 N-terminal plug; other site 318586004186 ligand-binding site [chemical binding]; other site 318586004187 AmpG-like permease; Region: 2A0125; TIGR00901 318586004188 muropeptide transporter; Validated; Region: ampG; PRK11010 318586004189 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586004190 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586004191 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 318586004192 muropeptide transporter; Validated; Region: ampG; PRK11010 318586004193 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586004194 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 318586004195 N-terminal plug; other site 318586004196 ligand-binding site [chemical binding]; other site 318586004197 Helix-turn-helix domain; Region: HTH_18; pfam12833 318586004198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586004199 Protein of unknown function (DUF454); Region: DUF454; cl01063 318586004200 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 318586004201 hypothetical protein; Provisional; Region: PRK06185 318586004202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004203 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 318586004204 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 318586004205 Walker A motif; other site 318586004206 ATP binding site [chemical binding]; other site 318586004207 Walker B motif; other site 318586004208 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 318586004209 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 318586004210 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 318586004211 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586004212 catalytic residue [active] 318586004213 Protein of unknown function (DUF736); Region: DUF736; cl02303 318586004214 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 318586004215 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 318586004216 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 318586004217 Replication initiator protein A; Region: RPA; cl02339 318586004218 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318586004219 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 318586004220 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 318586004221 Protein of unknown function (DUF736); Region: DUF736; cl02303 318586004222 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 318586004223 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 318586004224 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 318586004225 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 318586004226 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 318586004227 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 318586004228 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 318586004229 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 318586004230 ATP binding site [chemical binding]; other site 318586004231 putative Mg++ binding site [ion binding]; other site 318586004232 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 318586004233 nucleotide binding region [chemical binding]; other site 318586004234 ATP-binding site [chemical binding]; other site 318586004235 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 318586004236 ATP binding site [chemical binding]; other site 318586004237 putative Mg++ binding site [ion binding]; other site 318586004238 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 318586004239 DNA repair protein RadA; Provisional; Region: PRK11823 318586004240 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 318586004241 Protein of unknown function DUF262; Region: DUF262; cl14890 318586004242 Protein of unknown function DUF262; Region: DUF262; cl14890 318586004243 Predicted transcriptional regulator [Transcription]; Region: COG2378 318586004244 WYL domain; Region: WYL; cl14852 318586004245 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 318586004246 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 318586004247 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 318586004248 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 318586004249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004250 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004251 Fic/DOC family; Region: Fic; cl00960 318586004252 ParB-like nuclease domain; Region: ParBc; cl02129 318586004253 plasmid partitioning protein; Provisional; Region: PRK13832 318586004254 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 318586004255 MPN+ (JAMM) motif; other site 318586004256 Zinc-binding site [ion binding]; other site 318586004257 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 318586004258 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 318586004259 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 318586004260 H-NS histone family; Region: Histone_HNS; pfam00816 318586004261 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 318586004262 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 318586004263 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 318586004264 sequence-specific DNA binding site [nucleotide binding]; other site 318586004265 salt bridge; other site 318586004266 HipA N-terminal domain; Region: Couple_hipA; cl11853 318586004267 HipA-like N-terminal domain; Region: HipA_N; pfam07805 318586004268 HipA-like C-terminal domain; Region: HipA_C; pfam07804 318586004269 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 318586004270 Protein of unknown function, DUF481; Region: DUF481; cl01213 318586004271 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 318586004272 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 318586004273 homopentamer interface [polypeptide binding]; other site 318586004274 active site 318586004275 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 318586004276 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 318586004277 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 318586004278 dimerization interface [polypeptide binding]; other site 318586004279 active site 318586004280 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 318586004281 Lumazine binding domain; Region: Lum_binding; pfam00677 318586004282 Lumazine binding domain; Region: Lum_binding; pfam00677 318586004283 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 318586004284 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 318586004285 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 318586004286 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 318586004287 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 318586004288 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 318586004289 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 318586004290 catalytic motif [active] 318586004291 Zn binding site [ion binding]; other site 318586004292 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 318586004293 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 318586004294 ATP cone domain; Region: ATP-cone; pfam03477 318586004295 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 318586004296 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586004297 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586004298 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586004299 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 318586004300 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 318586004301 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 318586004302 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 318586004303 putative dimer interface [polypeptide binding]; other site 318586004304 active site pocket [active] 318586004305 putative cataytic base [active] 318586004306 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 318586004307 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 318586004308 homotrimer interface [polypeptide binding]; other site 318586004309 Walker A motif; other site 318586004310 GTP binding site [chemical binding]; other site 318586004311 Walker B motif; other site 318586004312 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 318586004313 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 318586004314 peptide binding site [polypeptide binding]; other site 318586004315 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 318586004316 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 318586004317 dimer interface [polypeptide binding]; other site 318586004318 conserved gate region; other site 318586004319 putative PBP binding loops; other site 318586004320 ABC-ATPase subunit interface; other site 318586004321 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 318586004322 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 318586004323 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 318586004324 dimer interface [polypeptide binding]; other site 318586004325 conserved gate region; other site 318586004326 putative PBP binding loops; other site 318586004327 ABC-ATPase subunit interface; other site 318586004328 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 318586004329 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 318586004330 Walker A/P-loop; other site 318586004331 ATP binding site [chemical binding]; other site 318586004332 Q-loop/lid; other site 318586004333 ABC transporter signature motif; other site 318586004334 Walker B; other site 318586004335 D-loop; other site 318586004336 H-loop/switch region; other site 318586004337 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586004338 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 318586004339 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 318586004340 Walker A/P-loop; other site 318586004341 ATP binding site [chemical binding]; other site 318586004342 Q-loop/lid; other site 318586004343 ABC transporter signature motif; other site 318586004344 Walker B; other site 318586004345 D-loop; other site 318586004346 H-loop/switch region; other site 318586004347 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586004348 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318586004349 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 318586004350 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586004351 active site 318586004352 nucleotide binding site [chemical binding]; other site 318586004353 HIGH motif; other site 318586004354 KMSKS motif; other site 318586004355 tellurite resistance protein terB; Region: terB; cd07176 318586004356 putative metal binding site [ion binding]; other site 318586004357 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586004358 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 318586004359 active site 318586004360 (T/H)XGH motif; other site 318586004361 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 318586004362 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 318586004363 Potassium binding sites [ion binding]; other site 318586004364 Cesium cation binding sites [ion binding]; other site 318586004365 OpgC protein; Region: OpgC_C; cl00792 318586004366 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 318586004367 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 318586004368 Ligand binding site; other site 318586004369 DXD motif; other site 318586004370 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 318586004371 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 318586004372 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318586004373 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 318586004374 active site 318586004375 phosphorylation site [posttranslational modification] 318586004376 intermolecular recognition site; other site 318586004377 dimerization interface [polypeptide binding]; other site 318586004378 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 318586004379 DNA binding site [nucleotide binding] 318586004380 sensor protein PhoQ; Provisional; Region: PRK10815 318586004381 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 318586004382 ATP binding site [chemical binding]; other site 318586004383 Mg2+ binding site [ion binding]; other site 318586004384 G-X-G motif; other site 318586004385 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 318586004386 excinuclease ABC subunit B; Provisional; Region: PRK05298 318586004387 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 318586004388 ATP binding site [chemical binding]; other site 318586004389 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 318586004390 nucleotide binding region [chemical binding]; other site 318586004391 ATP-binding site [chemical binding]; other site 318586004392 Ultra-violet resistance protein B; Region: UvrB; pfam12344 318586004393 UvrB/uvrC motif; Region: UVR; pfam02151 318586004394 Potato inhibitor I family; Region: potato_inhibit; cl15459 318586004395 AAA domain; Region: AAA_31; pfam13614 318586004396 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 318586004397 P-loop; other site 318586004398 Magnesium ion binding site [ion binding]; other site 318586004399 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318586004400 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 318586004401 active site 318586004402 dimer interface [polypeptide binding]; other site 318586004403 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 318586004404 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 318586004405 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 318586004406 putative active site [active] 318586004407 putative domain interface [polypeptide binding]; other site 318586004408 catalytic site [active] 318586004409 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 318586004410 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 318586004411 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 318586004412 ABC-ATPase subunit interface; other site 318586004413 dimer interface [polypeptide binding]; other site 318586004414 putative PBP binding regions; other site 318586004415 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 318586004416 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 318586004417 intersubunit interface [polypeptide binding]; other site 318586004418 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 318586004419 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586004420 putative C-terminal domain interface [polypeptide binding]; other site 318586004421 putative GSH binding site (G-site) [chemical binding]; other site 318586004422 putative dimer interface [polypeptide binding]; other site 318586004423 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318586004424 N-terminal domain interface [polypeptide binding]; other site 318586004425 dimer interface [polypeptide binding]; other site 318586004426 substrate binding pocket (H-site) [chemical binding]; other site 318586004427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586004428 Helix-turn-helix domains; Region: HTH; cl00088 318586004429 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 318586004430 dimerization interface [polypeptide binding]; other site 318586004431 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 318586004432 putative substrate translocation pore; other site 318586004433 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 318586004434 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 318586004435 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 318586004436 N-terminal plug; other site 318586004437 ligand-binding site [chemical binding]; other site 318586004438 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 318586004439 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 318586004440 E3 interaction surface; other site 318586004441 lipoyl attachment site [posttranslational modification]; other site 318586004442 e3 binding domain; Region: E3_binding; pfam02817 318586004443 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 318586004444 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 318586004445 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 318586004446 tetramer interface [polypeptide binding]; other site 318586004447 TPP-binding site [chemical binding]; other site 318586004448 heterodimer interface [polypeptide binding]; other site 318586004449 phosphorylation loop region [posttranslational modification] 318586004450 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 318586004451 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 318586004452 PYR/PP interface [polypeptide binding]; other site 318586004453 dimer interface [polypeptide binding]; other site 318586004454 TPP binding site [chemical binding]; other site 318586004455 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318586004456 Flavoprotein; Region: Flavoprotein; cl08021 318586004457 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 318586004458 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586004459 NAD(P) binding site [chemical binding]; other site 318586004460 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 318586004461 substrate binding site [chemical binding]; other site 318586004462 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_21; cd08520 318586004463 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586004464 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586004465 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 318586004466 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 318586004467 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 318586004468 ABC-ATPase subunit interface; other site 318586004469 putative PBP binding loops; other site 318586004470 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 318586004471 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 318586004472 Walker A/P-loop; other site 318586004473 ATP binding site [chemical binding]; other site 318586004474 Q-loop/lid; other site 318586004475 ABC transporter signature motif; other site 318586004476 Walker B; other site 318586004477 D-loop; other site 318586004478 H-loop/switch region; other site 318586004479 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 318586004480 Walker A/P-loop; other site 318586004481 ATP binding site [chemical binding]; other site 318586004482 Q-loop/lid; other site 318586004483 ABC transporter signature motif; other site 318586004484 Walker B; other site 318586004485 D-loop; other site 318586004486 H-loop/switch region; other site 318586004487 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 318586004488 putative active site pocket [active] 318586004489 dimerization interface [polypeptide binding]; other site 318586004490 putative catalytic residue [active] 318586004491 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586004492 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 318586004493 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 318586004494 active site 318586004495 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 318586004496 active site 318586004497 Prephenate dehydratase; Region: PDT; pfam00800 318586004498 Helix-turn-helix domains; Region: HTH; cl00088 318586004499 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 318586004500 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 318586004501 Flagellar protein FlaF; Region: FlaF; cl11454 318586004502 flagellin; Reviewed; Region: PRK12687 318586004503 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318586004504 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 318586004505 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 318586004506 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 318586004507 FlgD Ig-like domain; Region: FlgD_ig; cl15790 318586004508 Helix-turn-helix domains; Region: HTH; cl00088 318586004509 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 318586004510 PQQ-like domain; Region: PQQ_2; pfam13360 318586004511 Trp docking motif [polypeptide binding]; other site 318586004512 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 318586004513 putative outer membrane receptor; Provisional; Region: PRK13513 318586004514 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 318586004515 N-terminal plug; other site 318586004516 ligand-binding site [chemical binding]; other site 318586004517 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 318586004518 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586004519 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 318586004520 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 318586004521 FecR protein; Region: FecR; pfam04773 318586004522 enterobactin receptor protein; Provisional; Region: PRK13483 318586004523 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 318586004524 N-terminal plug; other site 318586004525 ligand-binding site [chemical binding]; other site 318586004526 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 318586004527 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 318586004528 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 318586004529 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 318586004530 E-class dimer interface [polypeptide binding]; other site 318586004531 P-class dimer interface [polypeptide binding]; other site 318586004532 active site 318586004533 Cu2+ binding site [ion binding]; other site 318586004534 Zn2+ binding site [ion binding]; other site 318586004535 PAS fold; Region: PAS_4; pfam08448 318586004536 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 318586004537 Histidine kinase; Region: HisKA_2; cl06527 318586004538 Isochorismatase family; Region: Isochorismatase; pfam00857 318586004539 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 318586004540 catalytic triad [active] 318586004541 conserved cis-peptide bond; other site 318586004542 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 318586004543 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318586004544 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 318586004545 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 318586004546 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 318586004547 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586004548 PYR/PP interface [polypeptide binding]; other site 318586004549 dimer interface [polypeptide binding]; other site 318586004550 TPP binding site [chemical binding]; other site 318586004551 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318586004552 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 318586004553 TPP-binding site [chemical binding]; other site 318586004554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004555 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318586004556 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 318586004557 DctM-like transporters; Region: DctM; pfam06808 318586004558 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586004559 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586004560 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586004561 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 318586004562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586004563 DNA-binding site [nucleotide binding]; DNA binding site 318586004564 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 318586004565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586004566 homodimer interface [polypeptide binding]; other site 318586004567 catalytic residue [active] 318586004568 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 318586004569 active site 1 [active] 318586004570 dimer interface [polypeptide binding]; other site 318586004571 active site 2 [active] 318586004572 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 318586004573 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 318586004574 dimer interface [polypeptide binding]; other site 318586004575 active site 318586004576 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 318586004577 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 318586004578 NAD binding site [chemical binding]; other site 318586004579 homotetramer interface [polypeptide binding]; other site 318586004580 homodimer interface [polypeptide binding]; other site 318586004581 substrate binding site [chemical binding]; other site 318586004582 active site 318586004583 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586004584 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318586004585 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 318586004586 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586004587 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318586004588 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 318586004589 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 318586004590 motif 1; other site 318586004591 dimer interface [polypeptide binding]; other site 318586004592 active site 318586004593 motif 2; other site 318586004594 motif 3; other site 318586004595 elongation factor P; Validated; Region: PRK00529 318586004596 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 318586004597 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 318586004598 RNA binding site [nucleotide binding]; other site 318586004599 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 318586004600 RNA binding site [nucleotide binding]; other site 318586004601 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 318586004602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004603 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318586004604 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 318586004605 active site 318586004606 oligomerization interface [polypeptide binding]; other site 318586004607 metal binding site [ion binding]; metal-binding site 318586004608 pantoate--beta-alanine ligase; Region: panC; TIGR00018 318586004609 Pantoate-beta-alanine ligase; Region: PanC; cd00560 318586004610 active site 318586004611 ATP-binding site [chemical binding]; other site 318586004612 pantoate-binding site; other site 318586004613 HXXH motif; other site 318586004614 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318586004615 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 318586004616 ATP binding site [chemical binding]; other site 318586004617 Mg2+ binding site [ion binding]; other site 318586004618 G-X-G motif; other site 318586004619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318586004620 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 318586004621 active site 318586004622 phosphorylation site [posttranslational modification] 318586004623 intermolecular recognition site; other site 318586004624 dimerization interface [polypeptide binding]; other site 318586004625 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 318586004626 DNA binding site [nucleotide binding] 318586004627 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 318586004628 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 318586004629 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586004630 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 318586004631 iron-sulfur cluster [ion binding]; other site 318586004632 [2Fe-2S] cluster binding site [ion binding]; other site 318586004633 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 318586004634 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 318586004635 dimer interface [polypeptide binding]; other site 318586004636 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 318586004637 active site 318586004638 Fe binding site [ion binding]; other site 318586004639 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586004640 Helix-turn-helix domains; Region: HTH; cl00088 318586004641 AsnC family; Region: AsnC_trans_reg; pfam01037 318586004642 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 318586004643 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 318586004644 FeS/SAM binding site; other site 318586004645 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 318586004646 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 318586004647 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 318586004648 Walker A/P-loop; other site 318586004649 ATP binding site [chemical binding]; other site 318586004650 Q-loop/lid; other site 318586004651 ABC transporter signature motif; other site 318586004652 Walker B; other site 318586004653 D-loop; other site 318586004654 H-loop/switch region; other site 318586004655 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586004656 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 318586004657 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 318586004658 Walker A/P-loop; other site 318586004659 ATP binding site [chemical binding]; other site 318586004660 Q-loop/lid; other site 318586004661 ABC transporter signature motif; other site 318586004662 Walker B; other site 318586004663 D-loop; other site 318586004664 H-loop/switch region; other site 318586004665 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586004666 dipeptide transporter; Provisional; Region: PRK10913 318586004667 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 318586004668 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 318586004669 putative PBP binding loops; other site 318586004670 dimer interface [polypeptide binding]; other site 318586004671 ABC-ATPase subunit interface; other site 318586004672 dipeptide transporter permease DppB; Provisional; Region: PRK10914 318586004673 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 318586004674 putative PBP binding loops; other site 318586004675 dimer interface [polypeptide binding]; other site 318586004676 ABC-ATPase subunit interface; other site 318586004677 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 318586004678 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586004679 peptide binding site [polypeptide binding]; other site 318586004680 KduI/IolB family; Region: KduI; cl01508 318586004681 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 318586004682 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 318586004683 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586004684 PYR/PP interface [polypeptide binding]; other site 318586004685 dimer interface [polypeptide binding]; other site 318586004686 TPP binding site [chemical binding]; other site 318586004687 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318586004688 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 318586004689 TPP-binding site [chemical binding]; other site 318586004690 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318586004691 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 318586004692 substrate binding site [chemical binding]; other site 318586004693 ATP binding site [chemical binding]; other site 318586004694 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 318586004695 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 318586004696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004697 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 318586004698 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 318586004699 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 318586004700 DNA interaction; other site 318586004701 Metal-binding active site; metal-binding site 318586004702 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 318586004703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004704 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 318586004705 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 318586004706 putative ligand binding site [chemical binding]; other site 318586004707 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 318586004708 TM-ABC transporter signature motif; other site 318586004709 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 318586004710 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 318586004711 Walker A/P-loop; other site 318586004712 ATP binding site [chemical binding]; other site 318586004713 Q-loop/lid; other site 318586004714 ABC transporter signature motif; other site 318586004715 Walker B; other site 318586004716 D-loop; other site 318586004717 H-loop/switch region; other site 318586004718 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 318586004719 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 318586004720 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 318586004721 putative ligand binding site [chemical binding]; other site 318586004722 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 318586004723 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586004724 DNA binding site [nucleotide binding] 318586004725 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 318586004726 putative ligand binding site [chemical binding]; other site 318586004727 Predicted integral membrane protein (DUF2270); Region: DUF2270; cl02337 318586004728 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 318586004729 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 318586004730 conserved cys residue [active] 318586004731 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586004732 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586004733 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 318586004734 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 318586004735 heme-binding site [chemical binding]; other site 318586004736 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 318586004737 FAD binding pocket [chemical binding]; other site 318586004738 FAD binding motif [chemical binding]; other site 318586004739 phosphate binding motif [ion binding]; other site 318586004740 beta-alpha-beta structure motif; other site 318586004741 NAD binding pocket [chemical binding]; other site 318586004742 Heme binding pocket [chemical binding]; other site 318586004743 Helix-turn-helix domains; Region: HTH; cl00088 318586004744 Rrf2 family protein; Region: rrf2_super; TIGR00738 318586004745 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318586004746 Helix-turn-helix domains; Region: HTH; cl00088 318586004747 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 318586004748 dimerization interface [polypeptide binding]; other site 318586004749 substrate binding pocket [chemical binding]; other site 318586004750 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318586004751 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318586004752 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 318586004753 active site 318586004754 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 318586004755 metabolite-proton symporter; Region: 2A0106; TIGR00883 318586004756 putative substrate translocation pore; other site 318586004757 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 318586004758 Helix-turn-helix domains; Region: HTH; cl00088 318586004759 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 318586004760 dimerization interface [polypeptide binding]; other site 318586004761 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 318586004762 metal binding site [ion binding]; metal-binding site 318586004763 active site 318586004764 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004765 transketolase; Reviewed; Region: PRK05899 318586004766 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 318586004767 TPP-binding site [chemical binding]; other site 318586004768 dimer interface [polypeptide binding]; other site 318586004769 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 318586004770 PYR/PP interface [polypeptide binding]; other site 318586004771 dimer interface [polypeptide binding]; other site 318586004772 TPP binding site [chemical binding]; other site 318586004773 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318586004774 hypothetical protein; Provisional; Region: PRK08185 318586004775 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 318586004776 intersubunit interface [polypeptide binding]; other site 318586004777 active site 318586004778 zinc binding site [ion binding]; other site 318586004779 Na+ binding site [ion binding]; other site 318586004780 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 318586004781 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 318586004782 homodimer interface [polypeptide binding]; other site 318586004783 active site 318586004784 heterodimer interface [polypeptide binding]; other site 318586004785 catalytic residue [active] 318586004786 metal binding site [ion binding]; metal-binding site 318586004787 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 318586004788 multimerization interface [polypeptide binding]; other site 318586004789 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 318586004790 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 318586004791 Walker A motif; other site 318586004792 ATP binding site [chemical binding]; other site 318586004793 Walker B motif; other site 318586004794 arginine finger; other site 318586004795 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 318586004796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004797 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 318586004798 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 318586004799 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 318586004800 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 318586004801 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 318586004802 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 318586004803 FeS/SAM binding site; other site 318586004804 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 318586004805 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 318586004806 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 318586004807 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 318586004808 active site 318586004809 catalytic residues [active] 318586004810 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 318586004811 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586004812 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586004813 Walker A/P-loop; other site 318586004814 ATP binding site [chemical binding]; other site 318586004815 Q-loop/lid; other site 318586004816 ABC transporter signature motif; other site 318586004817 Walker B; other site 318586004818 D-loop; other site 318586004819 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 318586004820 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586004821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586004822 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586004823 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 318586004824 NAD(P) binding site [chemical binding]; other site 318586004825 catalytic residues [active] 318586004826 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 318586004827 choline dehydrogenase; Validated; Region: PRK02106 318586004828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004829 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586004830 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 318586004831 TM-ABC transporter signature motif; other site 318586004832 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 318586004833 TM-ABC transporter signature motif; other site 318586004834 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586004835 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 318586004836 Walker A/P-loop; other site 318586004837 ATP binding site [chemical binding]; other site 318586004838 Q-loop/lid; other site 318586004839 ABC transporter signature motif; other site 318586004840 Walker B; other site 318586004841 D-loop; other site 318586004842 H-loop/switch region; other site 318586004843 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586004844 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 318586004845 Walker A/P-loop; other site 318586004846 ATP binding site [chemical binding]; other site 318586004847 Q-loop/lid; other site 318586004848 ABC transporter signature motif; other site 318586004849 Walker B; other site 318586004850 D-loop; other site 318586004851 H-loop/switch region; other site 318586004852 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586004853 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 318586004854 putative ligand binding site [chemical binding]; other site 318586004855 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586004856 Helix-turn-helix domains; Region: HTH; cl00088 318586004857 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 318586004858 dimerization interface [polypeptide binding]; other site 318586004859 malonyl-CoA synthase; Validated; Region: PRK07514 318586004860 AMP-binding enzyme; Region: AMP-binding; cl15778 318586004861 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586004862 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 318586004863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586004864 DNA-binding site [nucleotide binding]; DNA binding site 318586004865 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 318586004866 FCD domain; Region: FCD; cl11656 318586004867 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 318586004868 putative active site [active] 318586004869 putative metal binding residues [ion binding]; other site 318586004870 putative triphosphate binding site [ion binding]; other site 318586004871 signature motif; other site 318586004872 CHAD domain; Region: CHAD; cl10506 318586004873 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 318586004874 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 318586004875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004876 Sulfate transporter family; Region: Sulfate_transp; cl15842 318586004877 high affinity sulphate transporter 1; Region: sulP; TIGR00815 318586004878 Sulfate transporter family; Region: Sulfate_transp; cl15842 318586004879 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 318586004880 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 318586004881 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586004882 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 318586004883 putative dimer interface [polypeptide binding]; other site 318586004884 N-terminal domain interface [polypeptide binding]; other site 318586004885 putative substrate binding pocket (H-site) [chemical binding]; other site 318586004886 Iron permease FTR1 family; Region: FTR1; cl00475 318586004887 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318586004888 Imelysin; Region: Peptidase_M75; cl09159 318586004889 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 318586004890 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 318586004891 Imelysin; Region: Peptidase_M75; cl09159 318586004892 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318586004893 Helix-turn-helix domains; Region: HTH; cl00088 318586004894 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 318586004895 dimerization interface [polypeptide binding]; other site 318586004896 substrate binding pocket [chemical binding]; other site 318586004897 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318586004898 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318586004899 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 318586004900 active site 318586004901 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586004902 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 318586004903 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 318586004904 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 318586004905 putative active site [active] 318586004906 dimerization interface [polypeptide binding]; other site 318586004907 putative tRNAtyr binding site [nucleotide binding]; other site 318586004908 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 318586004909 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 318586004910 ATP binding site [chemical binding]; other site 318586004911 Mg++ binding site [ion binding]; other site 318586004912 motif III; other site 318586004913 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 318586004914 nucleotide binding region [chemical binding]; other site 318586004915 ATP-binding site [chemical binding]; other site 318586004916 thymidine kinase; Provisional; Region: PRK04296 318586004917 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 318586004918 YceI-like domain; Region: YceI; cl01001 318586004919 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 318586004920 active site 318586004921 multimer interface [polypeptide binding]; other site 318586004922 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 318586004923 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 318586004924 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 318586004925 ABC transporter; Region: ABC_tran_2; pfam12848 318586004926 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 318586004927 MltA-interacting protein MipA; Region: MipA; cl01504 318586004928 Domain of unknown function DUF59; Region: DUF59; cl00941 318586004929 maltose O-acetyltransferase; Provisional; Region: PRK10092 318586004930 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 318586004931 active site 318586004932 substrate binding site [chemical binding]; other site 318586004933 trimer interface [polypeptide binding]; other site 318586004934 CoA binding site [chemical binding]; other site 318586004935 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 318586004936 catalytic core [active] 318586004937 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 318586004938 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318586004939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004940 NAD(P) binding site [chemical binding]; other site 318586004941 active site 318586004942 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 318586004943 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 318586004944 S-adenosylmethionine binding site [chemical binding]; other site 318586004945 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 318586004946 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 318586004947 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586004948 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 318586004949 Helix-turn-helix domains; Region: HTH; cl00088 318586004950 AsnC family; Region: AsnC_trans_reg; pfam01037 318586004951 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586004952 Helix-turn-helix domains; Region: HTH; cl00088 318586004953 AsnC family; Region: AsnC_trans_reg; pfam01037 318586004954 ketol-acid reductoisomerase; Provisional; Region: PRK05479 318586004955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586004956 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 318586004957 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 318586004958 EamA-like transporter family; Region: EamA; cl01037 318586004959 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 318586004960 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 318586004961 Protein of unknown function, DUF655; Region: DUF655; pfam04919 318586004962 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 318586004963 generic binding surface I; other site 318586004964 generic binding surface II; other site 318586004965 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 318586004966 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 318586004967 Walker A/P-loop; other site 318586004968 ATP binding site [chemical binding]; other site 318586004969 Q-loop/lid; other site 318586004970 ABC transporter signature motif; other site 318586004971 Walker B; other site 318586004972 D-loop; other site 318586004973 H-loop/switch region; other site 318586004974 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 318586004975 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 318586004976 TM-ABC transporter signature motif; other site 318586004977 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 318586004978 TM-ABC transporter signature motif; other site 318586004979 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 318586004980 putative ligand binding site [chemical binding]; other site 318586004981 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 318586004982 DPS ferroxidase diiron center [ion binding]; other site 318586004983 dimerization interface [polypeptide binding]; other site 318586004984 ion pore; other site 318586004985 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318586004986 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318586004987 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 318586004988 NAD(P) binding site [chemical binding]; other site 318586004989 homotetramer interface [polypeptide binding]; other site 318586004990 homodimer interface [polypeptide binding]; other site 318586004991 active site 318586004992 Acyl transferase domain; Region: Acyl_transf_1; cl08282 318586004993 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 318586004994 two-component sensor protein; Provisional; Region: cpxA; PRK09470 318586004995 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 318586004996 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 318586004997 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 318586004998 ATP binding site [chemical binding]; other site 318586004999 Mg2+ binding site [ion binding]; other site 318586005000 G-X-G motif; other site 318586005001 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586005002 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 318586005003 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 318586005004 FAD binding pocket [chemical binding]; other site 318586005005 FAD binding motif [chemical binding]; other site 318586005006 phosphate binding motif [ion binding]; other site 318586005007 NAD binding pocket [chemical binding]; other site 318586005008 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 318586005009 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 318586005010 intersubunit interface [polypeptide binding]; other site 318586005011 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 318586005012 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 318586005013 N-terminal plug; other site 318586005014 ligand-binding site [chemical binding]; other site 318586005015 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586005016 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 318586005017 transmembrane helices; other site 318586005018 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 318586005019 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 318586005020 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 318586005021 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 318586005022 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 318586005023 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 318586005024 putative substrate translocation pore; other site 318586005025 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 318586005026 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 318586005027 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 318586005028 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 318586005029 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 318586005030 Protein export membrane protein; Region: SecD_SecF; cl14618 318586005031 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 318586005032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 318586005033 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 318586005034 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318586005035 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 318586005036 active site 318586005037 phosphorylation site [posttranslational modification] 318586005038 intermolecular recognition site; other site 318586005039 dimerization interface [polypeptide binding]; other site 318586005040 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 318586005041 dimerization interface [polypeptide binding]; other site 318586005042 DNA binding residues [nucleotide binding] 318586005043 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 318586005044 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 318586005045 Response regulator receiver domain; Region: Response_reg; pfam00072 318586005046 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 318586005047 active site 318586005048 phosphorylation site [posttranslational modification] 318586005049 intermolecular recognition site; other site 318586005050 dimerization interface [polypeptide binding]; other site 318586005051 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 318586005052 Na binding site [ion binding]; other site 318586005053 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 318586005054 dimer interface [polypeptide binding]; other site 318586005055 phosphorylation site [posttranslational modification] 318586005056 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 318586005057 ATP binding site [chemical binding]; other site 318586005058 Mg2+ binding site [ion binding]; other site 318586005059 G-X-G motif; other site 318586005060 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 318586005061 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 318586005062 rRNA binding site [nucleotide binding]; other site 318586005063 predicted 30S ribosome binding site; other site 318586005064 Maf-like protein; Region: Maf; pfam02545 318586005065 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 318586005066 active site 318586005067 dimer interface [polypeptide binding]; other site 318586005068 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 318586005069 RNA binding site [nucleotide binding]; other site 318586005070 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 318586005071 Domain of unknown function (DUF329); Region: DUF329; cl01144 318586005072 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 318586005073 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 318586005074 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318586005075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586005076 Coenzyme A binding pocket [chemical binding]; other site 318586005077 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 318586005078 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 318586005079 Walker A/P-loop; other site 318586005080 ATP binding site [chemical binding]; other site 318586005081 Q-loop/lid; other site 318586005082 ABC transporter signature motif; other site 318586005083 Walker B; other site 318586005084 D-loop; other site 318586005085 H-loop/switch region; other site 318586005086 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 318586005087 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 318586005088 sulfate transport protein; Provisional; Region: cysT; CHL00187 318586005089 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 318586005090 dimer interface [polypeptide binding]; other site 318586005091 conserved gate region; other site 318586005092 putative PBP binding loops; other site 318586005093 ABC-ATPase subunit interface; other site 318586005094 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 318586005095 dimer interface [polypeptide binding]; other site 318586005096 conserved gate region; other site 318586005097 putative PBP binding loops; other site 318586005098 ABC-ATPase subunit interface; other site 318586005099 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 318586005100 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 318586005101 putative metal binding site [ion binding]; other site 318586005102 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; cl02542 318586005103 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318586005104 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 318586005105 putative ADP-binding pocket [chemical binding]; other site 318586005106 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 318586005107 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 318586005108 Walker A/P-loop; other site 318586005109 ATP binding site [chemical binding]; other site 318586005110 Q-loop/lid; other site 318586005111 ABC transporter signature motif; other site 318586005112 Walker B; other site 318586005113 D-loop; other site 318586005114 H-loop/switch region; other site 318586005115 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586005116 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 318586005117 Walker A/P-loop; other site 318586005118 ATP binding site [chemical binding]; other site 318586005119 Q-loop/lid; other site 318586005120 ABC transporter signature motif; other site 318586005121 Walker B; other site 318586005122 D-loop; other site 318586005123 H-loop/switch region; other site 318586005124 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586005125 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 318586005126 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 318586005127 dimer interface [polypeptide binding]; other site 318586005128 conserved gate region; other site 318586005129 putative PBP binding loops; other site 318586005130 ABC-ATPase subunit interface; other site 318586005131 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 318586005132 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 318586005133 dimer interface [polypeptide binding]; other site 318586005134 conserved gate region; other site 318586005135 putative PBP binding loops; other site 318586005136 ABC-ATPase subunit interface; other site 318586005137 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 318586005138 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 318586005139 Cytochrome c; Region: Cytochrom_C; cl11414 318586005140 prephenate dehydratase; Provisional; Region: PRK11899 318586005141 Prephenate dehydratase; Region: PDT; pfam00800 318586005142 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 318586005143 putative L-Phe binding site [chemical binding]; other site 318586005144 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 318586005145 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 318586005146 active site 318586005147 metal binding site [ion binding]; metal-binding site 318586005148 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318586005149 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 318586005150 substrate binding site [chemical binding]; other site 318586005151 ATP binding site [chemical binding]; other site 318586005152 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 318586005153 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318586005154 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 318586005155 active site 318586005156 nucleophile elbow; other site 318586005157 peptide chain release factor 2; Validated; Region: prfB; PRK00578 318586005158 RF-1 domain; Region: RF-1; cl02875 318586005159 RF-1 domain; Region: RF-1; cl02875 318586005160 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 318586005161 Transglycosylase; Region: Transgly; cl07896 318586005162 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586005163 AMIN domain; Region: AMIN; pfam11741 318586005164 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 318586005165 active site 318586005166 metal binding site [ion binding]; metal-binding site 318586005167 aspartate aminotransferase; Provisional; Region: PRK05764 318586005168 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 318586005169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586005170 homodimer interface [polypeptide binding]; other site 318586005171 catalytic residue [active] 318586005172 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 318586005173 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 318586005174 catalytic residues [active] 318586005175 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 318586005176 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 318586005177 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 318586005178 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 318586005179 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 318586005180 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 318586005181 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 318586005182 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 318586005183 substrate-cofactor binding pocket; other site 318586005184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586005185 catalytic residue [active] 318586005186 hypothetical protein; Validated; Region: PRK09104 318586005187 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 318586005188 metal binding site [ion binding]; metal-binding site 318586005189 putative dimer interface [polypeptide binding]; other site 318586005190 LysE type translocator; Region: LysE; cl00565 318586005191 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 318586005192 Ferredoxin [Energy production and conversion]; Region: COG1146 318586005193 4Fe-4S binding domain; Region: Fer4; cl02805 318586005194 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 318586005195 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 318586005196 RNA binding surface [nucleotide binding]; other site 318586005197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586005198 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 318586005199 nucleotide binding region [chemical binding]; other site 318586005200 Superfamily II helicase [General function prediction only]; Region: COG1204 318586005201 ATP-binding site [chemical binding]; other site 318586005202 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 318586005203 binding surface 318586005204 TPR repeat; Region: TPR_11; pfam13414 318586005205 TPR motif; other site 318586005206 TPR repeat; Region: TPR_11; pfam13414 318586005207 SCP-2 sterol transfer family; Region: SCP2; cl01225 318586005208 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 318586005209 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 318586005210 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 318586005211 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 318586005212 active site 318586005213 Zn binding site [ion binding]; other site 318586005214 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 318586005215 active site 318586005216 dimer interface [polypeptide binding]; other site 318586005217 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586005218 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 318586005219 putative C-terminal domain interface [polypeptide binding]; other site 318586005220 putative GSH binding site (G-site) [chemical binding]; other site 318586005221 putative dimer interface [polypeptide binding]; other site 318586005222 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 318586005223 dimer interface [polypeptide binding]; other site 318586005224 N-terminal domain interface [polypeptide binding]; other site 318586005225 putative substrate binding pocket (H-site) [chemical binding]; other site 318586005226 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 318586005227 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 318586005228 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 318586005229 ATP binding site [chemical binding]; other site 318586005230 Mg2+ binding site [ion binding]; other site 318586005231 G-X-G motif; other site 318586005232 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 318586005233 anchoring element; other site 318586005234 dimer interface [polypeptide binding]; other site 318586005235 ATP binding site [chemical binding]; other site 318586005236 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 318586005237 active site 318586005238 metal binding site [ion binding]; metal-binding site 318586005239 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 318586005240 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 318586005241 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 318586005242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318586005243 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 318586005244 Walker A/P-loop; other site 318586005245 ATP binding site [chemical binding]; other site 318586005246 Q-loop/lid; other site 318586005247 ABC transporter signature motif; other site 318586005248 Walker B; other site 318586005249 D-loop; other site 318586005250 H-loop/switch region; other site 318586005251 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 318586005252 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 318586005253 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318586005254 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 318586005255 metal-binding site [ion binding] 318586005256 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318586005257 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586005258 FixH; Region: FixH; cl01254 318586005259 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 318586005260 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318586005261 4Fe-4S binding domain; Region: Fer4; cl02805 318586005262 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 318586005263 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 318586005264 Cytochrome c; Region: Cytochrom_C; cl11414 318586005265 Cytochrome c; Region: Cytochrom_C; cl11414 318586005266 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 318586005267 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 318586005268 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 318586005269 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 318586005270 Low-spin heme binding site [chemical binding]; other site 318586005271 Putative water exit pathway; other site 318586005272 Binuclear center (active site) [active] 318586005273 Putative proton exit pathway; other site 318586005274 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 318586005275 Ligand Binding Site [chemical binding]; other site 318586005276 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 318586005277 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 318586005278 ligand binding site [chemical binding]; other site 318586005279 flexible hinge region; other site 318586005280 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 318586005281 putative switch regulator; other site 318586005282 non-specific DNA interactions [nucleotide binding]; other site 318586005283 DNA binding site [nucleotide binding] 318586005284 sequence specific DNA binding site [nucleotide binding]; other site 318586005285 putative cAMP binding site [chemical binding]; other site 318586005286 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 318586005287 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 318586005288 FeS/SAM binding site; other site 318586005289 HemN C-terminal domain; Region: HemN_C; pfam06969 318586005290 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 318586005291 Cation efflux family; Region: Cation_efflux; cl00316 318586005292 DNA polymerase I; Provisional; Region: PRK05755 318586005293 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 318586005294 active site 318586005295 metal binding site 1 [ion binding]; metal-binding site 318586005296 putative 5' ssDNA interaction site; other site 318586005297 metal binding site 3; metal-binding site 318586005298 metal binding site 2 [ion binding]; metal-binding site 318586005299 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 318586005300 putative DNA binding site [nucleotide binding]; other site 318586005301 putative metal binding site [ion binding]; other site 318586005302 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 318586005303 active site 318586005304 catalytic site [active] 318586005305 substrate binding site [chemical binding]; other site 318586005306 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 318586005307 active site 318586005308 DNA binding site [nucleotide binding] 318586005309 catalytic site [active] 318586005310 Zinc-finger domain; Region: zf-CHCC; cl01821 318586005311 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318586005312 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586005313 Walker A/P-loop; other site 318586005314 ATP binding site [chemical binding]; other site 318586005315 Q-loop/lid; other site 318586005316 ABC transporter signature motif; other site 318586005317 Walker B; other site 318586005318 D-loop; other site 318586005319 H-loop/switch region; other site 318586005320 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 318586005321 nucleotide binding site/active site [active] 318586005322 HIT family signature motif; other site 318586005323 catalytic residue [active] 318586005324 Core-2/I-Branching enzyme; Region: Branch; pfam02485 318586005325 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 318586005326 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 318586005327 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318586005328 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 318586005329 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 318586005330 dimer interface [polypeptide binding]; other site 318586005331 active site 318586005332 CoA binding pocket [chemical binding]; other site 318586005333 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318586005334 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 318586005335 IHF dimer interface [polypeptide binding]; other site 318586005336 IHF - DNA interface [nucleotide binding]; other site 318586005337 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 318586005338 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 318586005339 DNA binding residues [nucleotide binding] 318586005340 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 318586005341 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 318586005342 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 318586005343 trimer interface [polypeptide binding]; other site 318586005344 active site 318586005345 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318586005346 trimer interface [polypeptide binding]; other site 318586005347 active site 318586005348 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 318586005349 ScpA/B protein; Region: ScpA_ScpB; cl00598 318586005350 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 318586005351 Sporulation related domain; Region: SPOR; cl10051 318586005352 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 318586005353 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 318586005354 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 318586005355 active site 318586005356 HIGH motif; other site 318586005357 KMSK motif region; other site 318586005358 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 318586005359 tRNA binding surface [nucleotide binding]; other site 318586005360 anticodon binding site; other site 318586005361 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 318586005362 S-adenosylmethionine synthetase; Validated; Region: PRK05250 318586005363 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 318586005364 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 318586005365 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 318586005366 HSP70 interaction site [polypeptide binding]; other site 318586005367 BolA-like protein; Region: BolA; cl00386 318586005368 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 318586005369 putative active site [active] 318586005370 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 318586005371 DHH family; Region: DHH; pfam01368 318586005372 DHHA1 domain; Region: DHHA1; pfam02272 318586005373 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 318586005374 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318586005375 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586005376 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 318586005377 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318586005378 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586005379 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 318586005380 IMP binding site; other site 318586005381 dimer interface [polypeptide binding]; other site 318586005382 partial ornithine binding site; other site 318586005383 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 318586005384 Cell division protein ZapA; Region: ZapA; cl01146 318586005385 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 318586005386 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 318586005387 putative active site pocket [active] 318586005388 4-fold oligomerization interface [polypeptide binding]; other site 318586005389 metal binding residues [ion binding]; metal-binding site 318586005390 3-fold/trimer interface [polypeptide binding]; other site 318586005391 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 318586005392 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 318586005393 putative active site [active] 318586005394 oxyanion strand; other site 318586005395 catalytic triad [active] 318586005396 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 318586005397 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 318586005398 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 318586005399 catalytic residues [active] 318586005400 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 318586005401 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 318586005402 substrate binding site [chemical binding]; other site 318586005403 glutamase interaction surface [polypeptide binding]; other site 318586005404 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 318586005405 metal binding site [ion binding]; metal-binding site 318586005406 MgtC family; Region: MgtC; pfam02308 318586005407 ribonuclease D; Region: rnd; TIGR01388 318586005408 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 318586005409 catalytic site [active] 318586005410 putative active site [active] 318586005411 putative substrate binding site [chemical binding]; other site 318586005412 HRDC domain; Region: HRDC; cl02578 318586005413 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 318586005414 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 318586005415 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586005416 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 318586005417 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 318586005418 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 318586005419 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 318586005420 choline dehydrogenase; Validated; Region: PRK02106 318586005421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586005422 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586005423 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586005424 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586005425 NAD(P) binding site [chemical binding]; other site 318586005426 catalytic residues [active] 318586005427 Helix-turn-helix domains; Region: HTH; cl00088 318586005428 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 318586005429 NMT1-like family; Region: NMT1_2; cl15260 318586005430 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 318586005431 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 318586005432 dimer interface [polypeptide binding]; other site 318586005433 conserved gate region; other site 318586005434 putative PBP binding loops; other site 318586005435 ABC-ATPase subunit interface; other site 318586005436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586005437 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 318586005438 Walker A/P-loop; other site 318586005439 ATP binding site [chemical binding]; other site 318586005440 Q-loop/lid; other site 318586005441 ABC transporter signature motif; other site 318586005442 Walker B; other site 318586005443 D-loop; other site 318586005444 H-loop/switch region; other site 318586005445 EamA-like transporter family; Region: EamA; cl01037 318586005446 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318586005447 EamA-like transporter family; Region: EamA; cl01037 318586005448 LysE type translocator; Region: LysE; cl00565 318586005449 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 318586005450 Helix-turn-helix domains; Region: HTH; cl00088 318586005451 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 318586005452 dimerization interface [polypeptide binding]; other site 318586005453 Transcriptional regulator; Region: Transcrip_reg; cl00361 318586005454 Ribbon-helix-helix domain; Region: RHH_4; cl01775 318586005455 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 318586005456 fumarate hydratase; Reviewed; Region: fumC; PRK00485 318586005457 Class II fumarases; Region: Fumarase_classII; cd01362 318586005458 active site 318586005459 tetramer interface [polypeptide binding]; other site 318586005460 Stringent starvation protein B; Region: SspB; cl01120 318586005461 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 318586005462 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 318586005463 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 318586005464 active site 318586005465 HIGH motif; other site 318586005466 dimer interface [polypeptide binding]; other site 318586005467 KMSKS motif; other site 318586005468 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 318586005469 Protein of unknown function (DUF2585); Region: DUF2585; cl07906 318586005470 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 318586005471 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 318586005472 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 318586005473 active site 318586005474 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 318586005475 active site 318586005476 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 318586005477 Phosphoglycerate kinase; Region: PGK; pfam00162 318586005478 substrate binding site [chemical binding]; other site 318586005479 hinge regions; other site 318586005480 ADP binding site [chemical binding]; other site 318586005481 catalytic site [active] 318586005482 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 318586005483 putative active site; other site 318586005484 catalytic residue [active] 318586005485 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 318586005486 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 318586005487 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 318586005488 P loop; other site 318586005489 GTP binding site [chemical binding]; other site 318586005490 ATP phosphoribosyltransferase; Region: HisG; cl15266 318586005491 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 318586005492 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 318586005493 motif 1; other site 318586005494 dimer interface [polypeptide binding]; other site 318586005495 active site 318586005496 motif 2; other site 318586005497 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 318586005498 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 318586005499 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 318586005500 dimer interface [polypeptide binding]; other site 318586005501 motif 1; other site 318586005502 motif 2; other site 318586005503 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 318586005504 active site 318586005505 motif 3; other site 318586005506 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 318586005507 anticodon binding site; other site 318586005508 SlyX; Region: SlyX; cl01090 318586005509 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 318586005510 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 318586005511 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 318586005512 GatB domain; Region: GatB_Yqey; cl11497 318586005513 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 318586005514 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 318586005515 Protein of unknown function (DUF541); Region: SIMPL; cl01077 318586005516 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 318586005517 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 318586005518 homodimer interface [polypeptide binding]; other site 318586005519 substrate-cofactor binding pocket; other site 318586005520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586005521 catalytic residue [active] 318586005522 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 318586005523 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 318586005524 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 318586005525 substrate binding pocket [chemical binding]; other site 318586005526 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 318586005527 B12 binding site [chemical binding]; other site 318586005528 cobalt ligand [ion binding]; other site 318586005529 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 318586005530 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 318586005531 Cytochrome c; Region: Cytochrom_C; cl11414 318586005532 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 318586005533 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 318586005534 Subunit I/III interface [polypeptide binding]; other site 318586005535 D-pathway; other site 318586005536 Subunit I/VIIc interface [polypeptide binding]; other site 318586005537 Subunit I/IV interface [polypeptide binding]; other site 318586005538 Subunit I/II interface [polypeptide binding]; other site 318586005539 Low-spin heme (heme a) binding site [chemical binding]; other site 318586005540 Subunit I/VIIa interface [polypeptide binding]; other site 318586005541 Subunit I/VIa interface [polypeptide binding]; other site 318586005542 Dimer interface; other site 318586005543 Putative water exit pathway; other site 318586005544 Binuclear center (heme a3/CuB) [ion binding]; other site 318586005545 K-pathway; other site 318586005546 Subunit I/Vb interface [polypeptide binding]; other site 318586005547 Putative proton exit pathway; other site 318586005548 Subunit I/VIb interface; other site 318586005549 Subunit I/VIc interface [polypeptide binding]; other site 318586005550 Electron transfer pathway; other site 318586005551 Subunit I/VIIIb interface [polypeptide binding]; other site 318586005552 Subunit I/VIIb interface [polypeptide binding]; other site 318586005553 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 318586005554 FAD dependent oxidoreductase; Region: DAO; pfam01266 318586005555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586005556 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 318586005557 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 318586005558 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 318586005559 Bacterial SH3 domain; Region: SH3_3; cl02551 318586005560 Bacterial SH3 domain; Region: SH3_3; cl02551 318586005561 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 318586005562 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 318586005563 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318586005564 active site 318586005565 Zn binding site [ion binding]; other site 318586005566 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 318586005567 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 318586005568 ATP binding site [chemical binding]; other site 318586005569 substrate interface [chemical binding]; other site 318586005570 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318586005571 trimer interface [polypeptide binding]; other site 318586005572 active site 318586005573 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 318586005574 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 318586005575 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 318586005576 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 318586005577 active site 318586005578 dimer interface [polypeptide binding]; other site 318586005579 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 318586005580 dimer interface [polypeptide binding]; other site 318586005581 active site 318586005582 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 318586005583 putative active site [active] 318586005584 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 318586005585 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 318586005586 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 318586005587 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 318586005588 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 318586005589 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 318586005590 putative RNA binding site [nucleotide binding]; other site 318586005591 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 318586005592 Dehydratase family; Region: ILVD_EDD; cl00340 318586005593 6-phosphogluconate dehydratase; Region: edd; TIGR01196 318586005594 PAS fold; Region: PAS_4; pfam08448 318586005595 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 318586005596 putative active site [active] 318586005597 heme pocket [chemical binding]; other site 318586005598 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318586005599 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 318586005600 active site 318586005601 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 318586005602 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 318586005603 histidinol dehydrogenase; Region: hisD; TIGR00069 318586005604 NAD binding site [chemical binding]; other site 318586005605 dimerization interface [polypeptide binding]; other site 318586005606 product binding site; other site 318586005607 substrate binding site [chemical binding]; other site 318586005608 zinc binding site [ion binding]; other site 318586005609 catalytic residues [active] 318586005610 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 318586005611 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 318586005612 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 318586005613 hinge; other site 318586005614 active site 318586005615 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 318586005616 sequence-specific DNA binding site [nucleotide binding]; other site 318586005617 salt bridge; other site 318586005618 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 318586005619 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 318586005620 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 318586005621 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 318586005622 metal binding triad [ion binding]; metal-binding site 318586005623 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318586005624 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 318586005625 catalytic residues [active] 318586005626 catalytic nucleophile [active] 318586005627 Recombinase; Region: Recombinase; pfam07508 318586005628 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 318586005629 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 318586005630 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 318586005631 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318586005632 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586005633 DNA binding site [nucleotide binding] 318586005634 domain linker motif; other site 318586005635 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 318586005636 putative dimerization interface [polypeptide binding]; other site 318586005637 putative ligand binding site [chemical binding]; other site 318586005638 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 318586005639 active site 318586005640 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 318586005641 putative MPT binding site; other site 318586005642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586005643 Coenzyme A binding pocket [chemical binding]; other site 318586005644 Dehydratase family; Region: ILVD_EDD; cl00340 318586005645 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_a; cd00913 318586005646 aromatic arch; other site 318586005647 DCoH dimer interaction site [polypeptide binding]; other site 318586005648 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 318586005649 DCoH tetramer interaction site [polypeptide binding]; other site 318586005650 substrate binding site [chemical binding]; other site 318586005651 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 318586005652 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 318586005653 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 318586005654 putative active site [active] 318586005655 catalytic site [active] 318586005656 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 318586005657 putative active site [active] 318586005658 catalytic site [active] 318586005659 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 318586005660 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 318586005661 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 318586005662 Predicted ATPase [General function prediction only]; Region: COG1485 318586005663 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 318586005664 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586005665 NAD(P) binding site [chemical binding]; other site 318586005666 catalytic residues [active] 318586005667 benzoate transport; Region: 2A0115; TIGR00895 318586005668 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 318586005669 putative substrate translocation pore; other site 318586005670 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 318586005671 HemY protein N-terminus; Region: HemY_N; pfam07219 318586005672 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 318586005673 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 318586005674 active site 318586005675 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 318586005676 UGMP family protein; Validated; Region: PRK09604 318586005677 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 318586005678 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 318586005679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586005680 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 318586005681 YCII-related domain; Region: YCII; cl00999 318586005682 EVE domain; Region: EVE; cl00728 318586005683 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 318586005684 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586005685 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586005686 Walker A/P-loop; other site 318586005687 ATP binding site [chemical binding]; other site 318586005688 Q-loop/lid; other site 318586005689 ABC transporter signature motif; other site 318586005690 Walker B; other site 318586005691 D-loop; other site 318586005692 H-loop/switch region; other site 318586005693 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 318586005694 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 318586005695 BON domain; Region: BON; cl02771 318586005696 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318586005697 AMP-binding domain protein; Validated; Region: PRK07529 318586005698 AMP-binding enzyme; Region: AMP-binding; cl15778 318586005699 AMP-binding enzyme; Region: AMP-binding; cl15778 318586005700 Protein of unknown function (DUF563); Region: DUF563; cl15705 318586005701 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 318586005702 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 318586005703 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586005704 Walker A/P-loop; other site 318586005705 ATP binding site [chemical binding]; other site 318586005706 Q-loop/lid; other site 318586005707 ABC transporter signature motif; other site 318586005708 Walker B; other site 318586005709 D-loop; other site 318586005710 H-loop/switch region; other site 318586005711 ABC transporter; Region: ABC_tran_2; pfam12848 318586005712 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 318586005713 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 318586005714 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 318586005715 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 318586005716 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 318586005717 FeS/SAM binding site; other site 318586005718 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586005719 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318586005720 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 318586005721 Walker A/P-loop; other site 318586005722 ATP binding site [chemical binding]; other site 318586005723 Q-loop/lid; other site 318586005724 ABC transporter signature motif; other site 318586005725 Walker B; other site 318586005726 D-loop; other site 318586005727 H-loop/switch region; other site 318586005728 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318586005729 putative acyl-acceptor binding pocket; other site 318586005730 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 318586005731 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 318586005732 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 318586005733 Walker A/P-loop; other site 318586005734 ATP binding site [chemical binding]; other site 318586005735 Q-loop/lid; other site 318586005736 ABC transporter signature motif; other site 318586005737 Walker B; other site 318586005738 D-loop; other site 318586005739 H-loop/switch region; other site 318586005740 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 318586005741 ribonuclease E; Reviewed; Region: rne; PRK10811 318586005742 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 318586005743 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318586005744 diaminopimelate decarboxylase; Region: lysA; TIGR01048 318586005745 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 318586005746 active site 318586005747 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318586005748 substrate binding site [chemical binding]; other site 318586005749 catalytic residues [active] 318586005750 dimer interface [polypeptide binding]; other site 318586005751 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 318586005752 argininosuccinate lyase; Provisional; Region: PRK00855 318586005753 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 318586005754 active sites [active] 318586005755 tetramer interface [polypeptide binding]; other site 318586005756 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 318586005757 catalytic residues [active] 318586005758 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 318586005759 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 318586005760 putative acyltransferase; Provisional; Region: PRK05790 318586005761 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 318586005762 dimer interface [polypeptide binding]; other site 318586005763 active site 318586005764 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 318586005765 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 318586005766 NAD(P) binding site [chemical binding]; other site 318586005767 homotetramer interface [polypeptide binding]; other site 318586005768 homodimer interface [polypeptide binding]; other site 318586005769 active site 318586005770 Protein of unknown function (DUF465); Region: DUF465; cl01070 318586005771 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 318586005772 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 318586005773 S-adenosylmethionine binding site [chemical binding]; other site 318586005774 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 318586005775 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 318586005776 substrate binding pocket [chemical binding]; other site 318586005777 chain length determination region; other site 318586005778 substrate-Mg2+ binding site; other site 318586005779 catalytic residues [active] 318586005780 aspartate-rich region 1; other site 318586005781 active site lid residues [active] 318586005782 aspartate-rich region 2; other site 318586005783 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 318586005784 Transglycosylase; Region: Transgly; cl07896 318586005785 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 318586005786 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586005787 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 318586005788 VacJ like lipoprotein; Region: VacJ; cl01073 318586005789 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 318586005790 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 318586005791 Walker A/P-loop; other site 318586005792 ATP binding site [chemical binding]; other site 318586005793 Q-loop/lid; other site 318586005794 ABC transporter signature motif; other site 318586005795 Walker B; other site 318586005796 D-loop; other site 318586005797 H-loop/switch region; other site 318586005798 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 318586005799 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 318586005800 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 318586005801 ornithine carbamoyltransferase; Provisional; Region: PRK00779 318586005802 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 318586005803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586005804 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 318586005805 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 318586005806 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 318586005807 inhibitor-cofactor binding pocket; inhibition site 318586005808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586005809 catalytic residue [active] 318586005810 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586005811 GcrA cell cycle regulator; Region: GcrA; cl11564 318586005812 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 318586005813 nudix motif; other site 318586005814 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 318586005815 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 318586005816 active site 318586005817 HIGH motif; other site 318586005818 KMSKS motif; other site 318586005819 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 318586005820 tRNA binding surface [nucleotide binding]; other site 318586005821 anticodon binding site; other site 318586005822 enterobactin receptor protein; Provisional; Region: PRK13483 318586005823 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 318586005824 N-terminal plug; other site 318586005825 ligand-binding site [chemical binding]; other site 318586005826 Arginase family; Region: Arginase; cl00306 318586005827 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 318586005828 DNA binding residues [nucleotide binding] 318586005829 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 318586005830 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586005831 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 318586005832 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 318586005833 cofactor binding site; other site 318586005834 DNA binding site [nucleotide binding] 318586005835 substrate interaction site [chemical binding]; other site 318586005836 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 318586005837 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 318586005838 additional DNA contacts [nucleotide binding]; other site 318586005839 mismatch recognition site; other site 318586005840 active site 318586005841 zinc binding site [ion binding]; other site 318586005842 DNA intercalation site [nucleotide binding]; other site 318586005843 Phage Terminase; Region: Terminase_1; pfam03354 318586005844 Phage terminase, small subunit; Region: Terminase_4; cl01525 318586005845 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 318586005846 DNA-binding site [nucleotide binding]; DNA binding site 318586005847 RNA-binding motif; other site 318586005848 Protein of unknown function (DUF982); Region: DUF982; pfam06169 318586005849 ParB-like nuclease domain; Region: ParBc; cl02129 318586005850 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 318586005851 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 318586005852 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 318586005853 active site 318586005854 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 318586005855 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 318586005856 oligomeric interface; other site 318586005857 putative active site [active] 318586005858 homodimer interface [polypeptide binding]; other site 318586005859 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 318586005860 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 318586005861 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 318586005862 catalytic residues [active] 318586005863 catalytic nucleophile [active] 318586005864 Presynaptic Site I dimer interface [polypeptide binding]; other site 318586005865 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318586005866 Synaptic Flat tetramer interface [polypeptide binding]; other site 318586005867 Synaptic Site I dimer interface [polypeptide binding]; other site 318586005868 DNA binding site [nucleotide binding] 318586005869 Recombinase; Region: Recombinase; pfam07508 318586005870 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 318586005871 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 318586005872 WYL domain; Region: WYL; cl14852 318586005873 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 318586005874 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 318586005875 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 318586005876 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586005877 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 318586005878 DNA binding residues [nucleotide binding] 318586005879 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 318586005880 ATP binding site [chemical binding]; other site 318586005881 Mg2+ binding site [ion binding]; other site 318586005882 G-X-G motif; other site 318586005883 Z1 domain; Region: Z1; pfam10593 318586005884 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 318586005885 AIPR protein; Region: AIPR; pfam10592 318586005886 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586005887 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586005888 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 318586005889 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 318586005890 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 318586005891 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586005892 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 318586005893 Protein of unknown function (DUF721); Region: DUF721; cl02324 318586005894 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 318586005895 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318586005896 minor groove reading motif; other site 318586005897 helix-hairpin-helix signature motif; other site 318586005898 substrate binding pocket [chemical binding]; other site 318586005899 active site 318586005900 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 318586005901 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 318586005902 DNA binding and oxoG recognition site [nucleotide binding] 318586005903 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 318586005904 Fatty acid desaturase; Region: FA_desaturase; pfam00487 318586005905 Di-iron ligands [ion binding]; other site 318586005906 GSCFA family; Region: GSCFA; pfam08885 318586005907 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 318586005908 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 318586005909 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 318586005910 RNA/DNA hybrid binding site [nucleotide binding]; other site 318586005911 active site 318586005912 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 318586005913 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 318586005914 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 318586005915 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586005916 putative substrate translocation pore; other site 318586005917 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586005918 DNA-binding site [nucleotide binding]; DNA binding site 318586005919 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 318586005920 UTRA domain; Region: UTRA; cl01230 318586005921 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318586005922 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586005923 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 318586005924 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 318586005925 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 318586005926 ligand binding site [chemical binding]; other site 318586005927 flexible hinge region; other site 318586005928 Helix-turn-helix domains; Region: HTH; cl00088 318586005929 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 318586005930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586005931 Walker A motif; other site 318586005932 ATP binding site [chemical binding]; other site 318586005933 Walker B motif; other site 318586005934 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 318586005935 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 318586005936 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 318586005937 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 318586005938 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318586005939 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 318586005940 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 318586005941 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 318586005942 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318586005943 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 318586005944 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 318586005945 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318586005946 SAF-like; Region: SAF_2; pfam13144 318586005947 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 318586005948 Flagellar L-ring protein; Region: FlgH; cl00905 318586005949 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 318586005950 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 318586005951 substrate binding site; other site 318586005952 tetramer interface; other site 318586005953 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 318586005954 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 318586005955 NADP binding site [chemical binding]; other site 318586005956 active site 318586005957 putative substrate binding site [chemical binding]; other site 318586005958 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 318586005959 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 318586005960 NAD binding site [chemical binding]; other site 318586005961 substrate binding site [chemical binding]; other site 318586005962 homodimer interface [polypeptide binding]; other site 318586005963 active site 318586005964 Cupin domain; Region: Cupin_2; cl09118 318586005965 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586005966 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586005967 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586005968 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586005969 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586005970 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586005971 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586005972 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586005973 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 318586005974 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 318586005975 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 318586005976 Walker A/P-loop; other site 318586005977 ATP binding site [chemical binding]; other site 318586005978 Q-loop/lid; other site 318586005979 ABC transporter signature motif; other site 318586005980 Walker B; other site 318586005981 D-loop; other site 318586005982 H-loop/switch region; other site 318586005983 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 318586005984 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 318586005985 Predicted amidohydrolase [General function prediction only]; Region: COG0388 318586005986 putative active site [active] 318586005987 catalytic triad [active] 318586005988 putative dimer interface [polypeptide binding]; other site 318586005989 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 318586005990 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586005991 Coenzyme A binding pocket [chemical binding]; other site 318586005992 anthranilate synthase component I; Provisional; Region: PRK13573 318586005993 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 318586005994 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318586005995 SurA N-terminal domain; Region: SurA_N_3; cl07813 318586005996 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318586005997 hypothetical protein; Provisional; Region: PRK07550 318586005998 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 318586005999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586006000 homodimer interface [polypeptide binding]; other site 318586006001 catalytic residue [active] 318586006002 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 318586006003 Glutamine amidotransferase class-I; Region: GATase; pfam00117 318586006004 glutamine binding [chemical binding]; other site 318586006005 catalytic triad [active] 318586006006 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318586006007 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 318586006008 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 318586006009 ligand binding site [chemical binding]; other site 318586006010 active site 318586006011 UGI interface [polypeptide binding]; other site 318586006012 catalytic site [active] 318586006013 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 318586006014 active site 318586006015 ribulose/triose binding site [chemical binding]; other site 318586006016 phosphate binding site [ion binding]; other site 318586006017 substrate (anthranilate) binding pocket [chemical binding]; other site 318586006018 product (indole) binding pocket [chemical binding]; other site 318586006019 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 318586006020 trimer interface [polypeptide binding]; other site 318586006021 dimer interface [polypeptide binding]; other site 318586006022 putative active site [active] 318586006023 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 318586006024 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 318586006025 dimer interface [polypeptide binding]; other site 318586006026 putative functional site; other site 318586006027 putative MPT binding site; other site 318586006028 LexA repressor; Validated; Region: PRK00215 318586006029 Helix-turn-helix domains; Region: HTH; cl00088 318586006030 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 318586006031 Catalytic site [active] 318586006032 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 318586006033 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586006034 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 318586006035 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 318586006036 thymidylate kinase; Validated; Region: tmk; PRK00698 318586006037 TMP-binding site; other site 318586006038 ATP-binding site [chemical binding]; other site 318586006039 DNA polymerase III subunit delta'; Validated; Region: PRK07471 318586006040 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586006041 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318586006042 active site 318586006043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586006044 Membrane transport protein; Region: Mem_trans; cl09117 318586006045 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 318586006046 dimer interface [polypeptide binding]; other site 318586006047 conserved gate region; other site 318586006048 putative PBP binding loops; other site 318586006049 ABC-ATPase subunit interface; other site 318586006050 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 318586006051 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 318586006052 dimer interface [polypeptide binding]; other site 318586006053 conserved gate region; other site 318586006054 putative PBP binding loops; other site 318586006055 ABC-ATPase subunit interface; other site 318586006056 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586006057 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 318586006058 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586006059 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 318586006060 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586006061 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 318586006062 Walker A/P-loop; other site 318586006063 ATP binding site [chemical binding]; other site 318586006064 Q-loop/lid; other site 318586006065 ABC transporter signature motif; other site 318586006066 Walker B; other site 318586006067 D-loop; other site 318586006068 H-loop/switch region; other site 318586006069 TOBE domain; Region: TOBE_2; cl01440 318586006070 Protein of unknown function (DUF421); Region: DUF421; cl00990 318586006071 short chain dehydrogenase; Provisional; Region: PRK07060 318586006072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586006073 NAD(P) binding site [chemical binding]; other site 318586006074 active site 318586006075 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 318586006076 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 318586006077 N- and C-terminal domain interface [polypeptide binding]; other site 318586006078 putative active site [active] 318586006079 putative MgATP binding site [chemical binding]; other site 318586006080 catalytic site [active] 318586006081 metal binding site [ion binding]; metal-binding site 318586006082 carbohydrate binding site [chemical binding]; other site 318586006083 putative homodimer interface [polypeptide binding]; other site 318586006084 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 318586006085 classical (c) SDRs; Region: SDR_c; cd05233 318586006086 NAD(P) binding site [chemical binding]; other site 318586006087 active site 318586006088 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 318586006089 TM-ABC transporter signature motif; other site 318586006090 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 318586006091 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 318586006092 Walker A/P-loop; other site 318586006093 ATP binding site [chemical binding]; other site 318586006094 Q-loop/lid; other site 318586006095 ABC transporter signature motif; other site 318586006096 Walker B; other site 318586006097 D-loop; other site 318586006098 H-loop/switch region; other site 318586006099 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 318586006100 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 318586006101 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 318586006102 putative ligand binding site [chemical binding]; other site 318586006103 Cupin domain; Region: Cupin_2; cl09118 318586006104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586006105 Helix-turn-helix domain; Region: HTH_18; pfam12833 318586006106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586006107 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 318586006108 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 318586006109 N- and C-terminal domain interface [polypeptide binding]; other site 318586006110 active site 318586006111 catalytic site [active] 318586006112 metal binding site [ion binding]; metal-binding site 318586006113 xylulose binding site [chemical binding]; other site 318586006114 putative ATP binding site [chemical binding]; other site 318586006115 homodimer interface [polypeptide binding]; other site 318586006116 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 318586006117 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 318586006118 inhibitor binding site; inhibition site 318586006119 catalytic Zn binding site [ion binding]; other site 318586006120 structural Zn binding site [ion binding]; other site 318586006121 NADP binding site [chemical binding]; other site 318586006122 tetramer interface [polypeptide binding]; other site 318586006123 GatB domain; Region: GatB_Yqey; cl11497 318586006124 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 318586006125 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 318586006126 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 318586006127 catalytic site [active] 318586006128 subunit interface [polypeptide binding]; other site 318586006129 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 318586006130 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 318586006131 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 318586006132 DXD motif; other site 318586006133 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 318586006134 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 318586006135 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318586006136 metal binding triad; other site 318586006137 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318586006138 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318586006139 metal binding triad; other site 318586006140 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318586006141 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 318586006142 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 318586006143 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586006144 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 318586006145 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586006146 PYR/PP interface [polypeptide binding]; other site 318586006147 dimer interface [polypeptide binding]; other site 318586006148 TPP binding site [chemical binding]; other site 318586006149 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318586006150 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 318586006151 TPP-binding site [chemical binding]; other site 318586006152 dimer interface [polypeptide binding]; other site 318586006153 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 318586006154 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 318586006155 putative valine binding site [chemical binding]; other site 318586006156 dimer interface [polypeptide binding]; other site 318586006157 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 318586006158 Peptidase family M48; Region: Peptidase_M48; cl12018 318586006159 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 318586006160 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 318586006161 putative FMN binding site [chemical binding]; other site 318586006162 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 318586006163 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 318586006164 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586006165 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 318586006166 dimer interface [polypeptide binding]; other site 318586006167 substrate binding site [chemical binding]; other site 318586006168 metal binding site [ion binding]; metal-binding site 318586006169 Response regulator receiver domain; Region: Response_reg; pfam00072 318586006170 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 318586006171 active site 318586006172 phosphorylation site [posttranslational modification] 318586006173 intermolecular recognition site; other site 318586006174 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 318586006175 dimerization interface [polypeptide binding]; other site 318586006176 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318586006177 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586006178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 318586006179 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 318586006180 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 318586006181 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 318586006182 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 318586006183 dimer interface [polypeptide binding]; other site 318586006184 anticodon binding site; other site 318586006185 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 318586006186 homodimer interface [polypeptide binding]; other site 318586006187 motif 1; other site 318586006188 active site 318586006189 motif 2; other site 318586006190 GAD domain; Region: GAD; pfam02938 318586006191 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 318586006192 active site 318586006193 motif 3; other site 318586006194 CAAX protease self-immunity; Region: Abi; cl00558 318586006195 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 318586006196 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 318586006197 active site 318586006198 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 318586006199 FAD binding domain; Region: FAD_binding_4; pfam01565 318586006200 Protein of unknown function (DUF808); Region: DUF808; cl01002 318586006201 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 318586006202 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 318586006203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586006204 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 318586006205 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 318586006206 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 318586006207 metal ion-dependent adhesion site (MIDAS); other site 318586006208 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 318586006209 putative ADP-binding pocket [chemical binding]; other site 318586006210 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318586006211 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 318586006212 active site 318586006213 Integral membrane protein TerC family; Region: TerC; cl10468 318586006214 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 318586006215 MOFRL family; Region: MOFRL; pfam05161 318586006216 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 318586006217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586006218 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 318586006219 dimer interface [polypeptide binding]; other site 318586006220 putative tRNA-binding site [nucleotide binding]; other site 318586006221 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 318586006222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586006223 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 318586006224 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 318586006225 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 318586006226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586006227 homodimer interface [polypeptide binding]; other site 318586006228 catalytic residue [active] 318586006229 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 318586006230 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586006231 AIR carboxylase; Region: AIRC; cl00310 318586006232 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 318586006233 putative dimer interface [polypeptide binding]; other site 318586006234 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 318586006235 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586006236 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 318586006237 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586006238 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 318586006239 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586006240 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586006241 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 318586006242 putative DNA binding site [nucleotide binding]; other site 318586006243 dimerization interface [polypeptide binding]; other site 318586006244 putative Zn2+ binding site [ion binding]; other site 318586006245 AsnC family; Region: AsnC_trans_reg; pfam01037 318586006246 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 318586006247 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 318586006248 Uncharacterized conserved protein [Function unknown]; Region: COG1565 318586006249 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 318586006250 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 318586006251 Membrane fusogenic activity; Region: BMFP; cl01115 318586006252 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 318586006253 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318586006254 active site 318586006255 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 318586006256 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318586006257 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586006258 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 318586006259 DNA binding residues [nucleotide binding] 318586006260 Sporulation related domain; Region: SPOR; cl10051 318586006261 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318586006262 active site 318586006263 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 318586006264 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 318586006265 active site 318586006266 Sulfatase; Region: Sulfatase; cl10460 318586006267 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 318586006268 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 318586006269 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318586006270 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 318586006271 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 318586006272 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 318586006273 active site 318586006274 catalytic motif [active] 318586006275 Zn binding site [ion binding]; other site 318586006276 malic enzyme; Reviewed; Region: PRK12862 318586006277 Malic enzyme, N-terminal domain; Region: malic; pfam00390 318586006278 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 318586006279 putative NAD(P) binding site [chemical binding]; other site 318586006280 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318586006281 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 318586006282 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 318586006283 AMP-binding enzyme; Region: AMP-binding; cl15778 318586006284 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586006285 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 318586006286 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 318586006287 hinge; other site 318586006288 active site 318586006289 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 318586006290 S-adenosylmethionine binding site [chemical binding]; other site 318586006291 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 318586006292 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586006293 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 318586006294 Type III pantothenate kinase; Region: Pan_kinase; cl09130 318586006295 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 318586006296 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 318586006297 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 318586006298 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 318586006299 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318586006300 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 318586006301 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318586006302 hydrogenase 4 subunit D; Validated; Region: PRK06525 318586006303 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 318586006304 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318586006305 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 318586006306 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 318586006307 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 318586006308 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 318586006309 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 318586006310 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 318586006311 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586006312 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586006313 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 318586006314 4Fe-4S binding domain; Region: Fer4; cl02805 318586006315 4Fe-4S binding domain; Region: Fer4; cl02805 318586006316 NADH dehydrogenase; Region: NADHdh; cl00469 318586006317 NADH dehydrogenase subunit G; Validated; Region: PRK09130 318586006318 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 318586006319 catalytic loop [active] 318586006320 iron binding site [ion binding]; other site 318586006321 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 318586006322 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 318586006323 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 318586006324 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 318586006325 SLBB domain; Region: SLBB; pfam10531 318586006326 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 318586006327 Uncharacterized conserved protein [Function unknown]; Region: COG3743 318586006328 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 318586006329 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 318586006330 putative dimer interface [polypeptide binding]; other site 318586006331 [2Fe-2S] cluster binding site [ion binding]; other site 318586006332 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 318586006333 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 318586006334 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 318586006335 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 318586006336 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 318586006337 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 318586006338 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 318586006339 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 318586006340 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 318586006341 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 318586006342 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318586006343 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 318586006344 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 318586006345 FeS/SAM binding site; other site 318586006346 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 318586006347 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 318586006348 A new structural DNA glycosylase; Region: AlkD_like; cd06561 318586006349 active site 318586006350 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586006351 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318586006352 tetramerization interface [polypeptide binding]; other site 318586006353 NAD(P) binding site [chemical binding]; other site 318586006354 catalytic residues [active] 318586006355 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 318586006356 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 318586006357 B1 nucleotide binding pocket [chemical binding]; other site 318586006358 B2 nucleotide binding pocket [chemical binding]; other site 318586006359 CAS motifs; other site 318586006360 active site 318586006361 TM2 domain; Region: TM2; cl00984 318586006362 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 318586006363 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 318586006364 putative tRNA-binding site [nucleotide binding]; other site 318586006365 B3/4 domain; Region: B3_4; cl11458 318586006366 tRNA synthetase B5 domain; Region: B5; cl08394 318586006367 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 318586006368 dimer interface [polypeptide binding]; other site 318586006369 motif 1; other site 318586006370 motif 3; other site 318586006371 motif 2; other site 318586006372 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 318586006373 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 318586006374 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 318586006375 C-terminal domain interface [polypeptide binding]; other site 318586006376 GSH binding site (G-site) [chemical binding]; other site 318586006377 dimer interface [polypeptide binding]; other site 318586006378 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 318586006379 dimer interface [polypeptide binding]; other site 318586006380 N-terminal domain interface [polypeptide binding]; other site 318586006381 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 318586006382 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 318586006383 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586006384 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 318586006385 putative DNA binding site [nucleotide binding]; other site 318586006386 putative Zn2+ binding site [ion binding]; other site 318586006387 AsnC family; Region: AsnC_trans_reg; pfam01037 318586006388 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 318586006389 Helix-turn-helix domains; Region: HTH; cl00088 318586006390 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 318586006391 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 318586006392 NAD(P) binding site [chemical binding]; other site 318586006393 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 318586006394 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 318586006395 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 318586006396 dimer interface [polypeptide binding]; other site 318586006397 motif 1; other site 318586006398 active site 318586006399 motif 2; other site 318586006400 motif 3; other site 318586006401 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 318586006402 ArsC family; Region: ArsC; pfam03960 318586006403 catalytic residues [active] 318586006404 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 318586006405 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 318586006406 23S rRNA binding site [nucleotide binding]; other site 318586006407 L21 binding site [polypeptide binding]; other site 318586006408 L13 binding site [polypeptide binding]; other site 318586006409 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 318586006410 pyruvate kinase; Provisional; Region: PRK06247 318586006411 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 318586006412 domain interfaces; other site 318586006413 active site 318586006414 N-formylglutamate amidohydrolase; Region: FGase; cl01522 318586006415 Mnt; Region: mnt; PHA01513 318586006416 TPR repeat; Region: TPR_11; pfam13414 318586006417 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 318586006418 binding surface 318586006419 TPR motif; other site 318586006420 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 318586006421 NMT1-like family; Region: NMT1_2; cl15260 318586006422 Sulfatase; Region: Sulfatase; cl10460 318586006423 choline-sulfatase; Region: chol_sulfatase; TIGR03417 318586006424 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 318586006425 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 318586006426 Transglycosylase; Region: Transgly; cl07896 318586006427 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586006428 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 318586006429 C-terminal domain interface [polypeptide binding]; other site 318586006430 GSH binding site (G-site) [chemical binding]; other site 318586006431 dimer interface [polypeptide binding]; other site 318586006432 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 318586006433 N-terminal domain interface [polypeptide binding]; other site 318586006434 dimer interface [polypeptide binding]; other site 318586006435 substrate binding pocket (H-site) [chemical binding]; other site 318586006436 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 318586006437 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 318586006438 EamA-like transporter family; Region: EamA; cl01037 318586006439 Core-2/I-Branching enzyme; Region: Branch; pfam02485 318586006440 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 318586006441 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 318586006442 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 318586006443 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 318586006444 NAD binding site [chemical binding]; other site 318586006445 homodimer interface [polypeptide binding]; other site 318586006446 active site 318586006447 substrate binding site [chemical binding]; other site 318586006448 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 318586006449 active site 318586006450 tetramer interface; other site 318586006451 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 318586006452 active site 318586006453 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 318586006454 Ligand binding site; other site 318586006455 oligomer interface; other site 318586006456 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 318586006457 active site 318586006458 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586006459 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 318586006460 chaperone protein DnaJ; Provisional; Region: PRK10767 318586006461 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 318586006462 HSP70 interaction site [polypeptide binding]; other site 318586006463 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 318586006464 substrate binding site [polypeptide binding]; other site 318586006465 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 318586006466 Zn binding sites [ion binding]; other site 318586006467 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 318586006468 dimer interface [polypeptide binding]; other site 318586006469 hypothetical protein; Reviewed; Region: PRK00024 318586006470 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 318586006471 MPN+ (JAMM) motif; other site 318586006472 Zinc-binding site [ion binding]; other site 318586006473 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 318586006474 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 318586006475 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 318586006476 [2Fe-2S] cluster binding site [ion binding]; other site 318586006477 cytochrome b; Provisional; Region: CYTB; MTH00191 318586006478 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 318586006479 intrachain domain interface; other site 318586006480 interchain domain interface [polypeptide binding]; other site 318586006481 heme bH binding site [chemical binding]; other site 318586006482 Qi binding site; other site 318586006483 heme bL binding site [chemical binding]; other site 318586006484 Qo binding site; other site 318586006485 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 318586006486 interchain domain interface [polypeptide binding]; other site 318586006487 intrachain domain interface; other site 318586006488 Qi binding site; other site 318586006489 Qo binding site; other site 318586006490 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 318586006491 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 318586006492 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318586006493 substrate binding site [chemical binding]; other site 318586006494 dimer interface [polypeptide binding]; other site 318586006495 ATP binding site [chemical binding]; other site 318586006496 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 318586006497 tandem repeat interface [polypeptide binding]; other site 318586006498 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 318586006499 oligomer interface [polypeptide binding]; other site 318586006500 active site residues [active] 318586006501 pteridine reductase; Provisional; Region: PRK09135 318586006502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586006503 NAD(P) binding site [chemical binding]; other site 318586006504 active site 318586006505 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 318586006506 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 318586006507 GIY-YIG motif/motif A; other site 318586006508 active site 318586006509 catalytic site [active] 318586006510 putative DNA binding site [nucleotide binding]; other site 318586006511 metal binding site [ion binding]; metal-binding site 318586006512 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 318586006513 Protein of unknown function (DUF330); Region: DUF330; cl01135 318586006514 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 318586006515 mce related protein; Region: MCE; pfam02470 318586006516 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 318586006517 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586006518 Walker A/P-loop; other site 318586006519 ATP binding site [chemical binding]; other site 318586006520 Q-loop/lid; other site 318586006521 ABC transporter signature motif; other site 318586006522 Walker B; other site 318586006523 D-loop; other site 318586006524 H-loop/switch region; other site 318586006525 Permease; Region: Permease; cl00510 318586006526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586006527 Helix-turn-helix domains; Region: HTH; cl00088 318586006528 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 318586006529 putative dimerization interface [polypeptide binding]; other site 318586006530 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 318586006531 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 318586006532 FAD binding site [chemical binding]; other site 318586006533 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 318586006534 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 318586006535 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 318586006536 dimer interface [polypeptide binding]; other site 318586006537 active site 318586006538 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318586006539 catalytic residues [active] 318586006540 substrate binding site [chemical binding]; other site 318586006541 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 318586006542 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 318586006543 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 318586006544 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586006545 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 318586006546 catalytic triad [active] 318586006547 dimer interface [polypeptide binding]; other site 318586006548 Helix-turn-helix domains; Region: HTH; cl00088 318586006549 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 318586006550 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 318586006551 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586006552 YceI-like domain; Region: YceI; cl01001 318586006553 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 318586006554 putative C-terminal domain interface [polypeptide binding]; other site 318586006555 putative GSH binding site (G-site) [chemical binding]; other site 318586006556 putative dimer interface [polypeptide binding]; other site 318586006557 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 318586006558 dimer interface [polypeptide binding]; other site 318586006559 N-terminal domain interface [polypeptide binding]; other site 318586006560 putative substrate binding pocket (H-site) [chemical binding]; other site 318586006561 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586006562 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 318586006563 active site 318586006564 HIGH motif; other site 318586006565 nucleotide binding site [chemical binding]; other site 318586006566 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 318586006567 active site 318586006568 KMSKS motif; other site 318586006569 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 318586006570 tRNA binding surface [nucleotide binding]; other site 318586006571 anticodon binding site; other site 318586006572 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 318586006573 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 318586006574 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 318586006575 putative active site [active] 318586006576 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 318586006577 Phospholipid methyltransferase; Region: PEMT; cl00763 318586006578 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318586006579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586006580 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 318586006581 Rhomboid family; Region: Rhomboid; cl11446 318586006582 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 318586006583 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 318586006584 inhibitor-cofactor binding pocket; inhibition site 318586006585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586006586 catalytic residue [active] 318586006587 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 318586006588 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 318586006589 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 318586006590 MoaE homodimer interface [polypeptide binding]; other site 318586006591 MoaD interaction [polypeptide binding]; other site 318586006592 active site residues [active] 318586006593 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 318586006594 MoaE interaction surface [polypeptide binding]; other site 318586006595 MoeB interaction surface [polypeptide binding]; other site 318586006596 thiocarboxylated glycine; other site 318586006597 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318586006598 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 318586006599 DNA binding residues [nucleotide binding] 318586006600 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 318586006601 dimer interface [polypeptide binding]; other site 318586006602 putative metal binding site [ion binding]; other site 318586006603 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 318586006604 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 318586006605 metal-binding site [ion binding] 318586006606 UbiA prenyltransferase family; Region: UbiA; cl00337 318586006607 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318586006608 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586006609 glycine dehydrogenase; Provisional; Region: PRK05367 318586006610 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 318586006611 tetramer interface [polypeptide binding]; other site 318586006612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586006613 catalytic residue [active] 318586006614 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 318586006615 tetramer interface [polypeptide binding]; other site 318586006616 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586006617 catalytic residue [active] 318586006618 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 318586006619 lipoyl attachment site [posttranslational modification]; other site 318586006620 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 318586006621 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 318586006622 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586006623 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 318586006624 putative NAD(P) binding site [chemical binding]; other site 318586006625 putative active site [active] 318586006626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318586006627 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 318586006628 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 318586006629 ATP binding site [chemical binding]; other site 318586006630 Mg2+ binding site [ion binding]; other site 318586006631 G-X-G motif; other site 318586006632 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 318586006633 Response regulator receiver domain; Region: Response_reg; pfam00072 318586006634 active site 318586006635 phosphorylation site [posttranslational modification] 318586006636 intermolecular recognition site; other site 318586006637 dimerization interface [polypeptide binding]; other site 318586006638 Uncharacterized conserved protein [Function unknown]; Region: COG3287 318586006639 FIST N domain; Region: FIST; cl10701 318586006640 FIST C domain; Region: FIST_C; pfam10442 318586006641 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318586006642 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 318586006643 active site 318586006644 phosphorylation site [posttranslational modification] 318586006645 intermolecular recognition site; other site 318586006646 dimerization interface [polypeptide binding]; other site 318586006647 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 318586006648 DNA binding residues [nucleotide binding] 318586006649 dimerization interface [polypeptide binding]; other site 318586006650 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 318586006651 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 318586006652 membrane-bound complex binding site; other site 318586006653 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586006654 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 318586006655 dimer interface [polypeptide binding]; other site 318586006656 conserved gate region; other site 318586006657 putative PBP binding loops; other site 318586006658 ABC-ATPase subunit interface; other site 318586006659 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 318586006660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586006661 Walker A/P-loop; other site 318586006662 ATP binding site [chemical binding]; other site 318586006663 Q-loop/lid; other site 318586006664 ABC transporter signature motif; other site 318586006665 Walker B; other site 318586006666 D-loop; other site 318586006667 H-loop/switch region; other site 318586006668 Predicted secreted protein [Function unknown]; Region: COG5501 318586006669 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 318586006670 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 318586006671 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 318586006672 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 318586006673 FeS/SAM binding site; other site 318586006674 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 318586006675 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 318586006676 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 318586006677 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586006678 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586006679 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 318586006680 putative binding site; other site 318586006681 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 318586006682 MG2 domain; Region: A2M_N; pfam01835 318586006683 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 318586006684 Alpha-2-macroglobulin family; Region: A2M; pfam00207 318586006685 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 318586006686 surface patch; other site 318586006687 thioester region; other site 318586006688 specificity defining residues; other site 318586006689 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 318586006690 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586006691 Helix-turn-helix domains; Region: HTH; cl00088 318586006692 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 318586006693 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586006694 NAD(P) binding site [chemical binding]; other site 318586006695 catalytic residues [active] 318586006696 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 318586006697 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 318586006698 NAD binding site [chemical binding]; other site 318586006699 substrate binding site [chemical binding]; other site 318586006700 catalytic Zn binding site [ion binding]; other site 318586006701 tetramer interface [polypeptide binding]; other site 318586006702 structural Zn binding site [ion binding]; other site 318586006703 Protein of unknown function (DUF779); Region: DUF779; cl01432 318586006704 Trm112p-like protein; Region: Trm112p; cl01066 318586006705 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 318586006706 GRIP domain; Region: GRIP; cl03225 318586006707 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 318586006708 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 318586006709 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 318586006710 putative catalytic site [active] 318586006711 putative phosphate binding site [ion binding]; other site 318586006712 active site 318586006713 metal binding site A [ion binding]; metal-binding site 318586006714 DNA binding site [nucleotide binding] 318586006715 putative AP binding site [nucleotide binding]; other site 318586006716 putative metal binding site B [ion binding]; other site 318586006717 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 318586006718 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 318586006719 active site 318586006720 phosphorylation site [posttranslational modification] 318586006721 intermolecular recognition site; other site 318586006722 dimerization interface [polypeptide binding]; other site 318586006723 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 318586006724 DNA binding site [nucleotide binding] 318586006725 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 318586006726 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 318586006727 dimerization interface [polypeptide binding]; other site 318586006728 active site 318586006729 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586006730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586006731 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586006732 NAD(P) binding site [chemical binding]; other site 318586006733 active site 318586006734 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 318586006735 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 318586006736 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 318586006737 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 318586006738 putative metal binding site [ion binding]; other site 318586006739 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 318586006740 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318586006741 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 318586006742 putative active site [active] 318586006743 putative metal binding site [ion binding]; other site 318586006744 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318586006745 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 318586006746 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318586006747 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 318586006748 Isochorismatase family; Region: Isochorismatase; pfam00857 318586006749 catalytic triad [active] 318586006750 conserved cis-peptide bond; other site 318586006751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586006752 NAD(P) binding site [chemical binding]; other site 318586006753 active site 318586006754 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 318586006755 AMP-binding enzyme; Region: AMP-binding; cl15778 318586006756 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586006757 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 318586006758 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 318586006759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586006760 Coenzyme A binding pocket [chemical binding]; other site 318586006761 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 318586006762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586006763 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 318586006764 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 318586006765 Helix-turn-helix domains; Region: HTH; cl00088 318586006766 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 318586006767 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 318586006768 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 318586006769 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 318586006770 Walker A motif; other site 318586006771 ATP binding site [chemical binding]; other site 318586006772 Walker B motif; other site 318586006773 arginine finger; other site 318586006774 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 318586006775 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 318586006776 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 318586006777 non-specific DNA binding site [nucleotide binding]; other site 318586006778 salt bridge; other site 318586006779 sequence-specific DNA binding site [nucleotide binding]; other site 318586006780 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586006781 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318586006782 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 318586006783 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 318586006784 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586006785 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 318586006786 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 318586006787 putative active site [active] 318586006788 putative metal binding site [ion binding]; other site 318586006789 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 318586006790 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318586006791 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318586006792 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 318586006793 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 318586006794 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 318586006795 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 318586006796 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 318586006797 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586006798 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586006799 Walker A/P-loop; other site 318586006800 ATP binding site [chemical binding]; other site 318586006801 Q-loop/lid; other site 318586006802 ABC transporter signature motif; other site 318586006803 Walker B; other site 318586006804 D-loop; other site 318586006805 H-loop/switch region; other site 318586006806 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 318586006807 sequence-specific DNA binding site [nucleotide binding]; other site 318586006808 salt bridge; other site 318586006809 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586006810 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 318586006811 active site 318586006812 catalytic residues [active] 318586006813 DNA binding site [nucleotide binding] 318586006814 Int/Topo IB signature motif; other site 318586006815 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; cd00397 318586006816 active site 318586006817 DNA binding site [nucleotide binding] 318586006818 Int/Topo IB signature motif; other site 318586006819 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 318586006820 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 318586006821 Predicted permeases [General function prediction only]; Region: RarD; COG2962 318586006822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 318586006823 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 318586006824 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 318586006825 Trp docking motif [polypeptide binding]; other site 318586006826 active site 318586006827 PQQ-like domain; Region: PQQ_2; pfam13360 318586006828 GTP-binding protein Der; Reviewed; Region: PRK00093 318586006829 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 318586006830 G1 box; other site 318586006831 GTP/Mg2+ binding site [chemical binding]; other site 318586006832 Switch I region; other site 318586006833 G2 box; other site 318586006834 Switch II region; other site 318586006835 G3 box; other site 318586006836 G4 box; other site 318586006837 G5 box; other site 318586006838 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 318586006839 G1 box; other site 318586006840 GTP/Mg2+ binding site [chemical binding]; other site 318586006841 Switch I region; other site 318586006842 G2 box; other site 318586006843 G3 box; other site 318586006844 Switch II region; other site 318586006845 G4 box; other site 318586006846 G5 box; other site 318586006847 seryl-tRNA synthetase; Provisional; Region: PRK05431 318586006848 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 318586006849 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 318586006850 dimer interface [polypeptide binding]; other site 318586006851 active site 318586006852 motif 1; other site 318586006853 motif 2; other site 318586006854 motif 3; other site 318586006855 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586006856 membrane ATPase/protein kinase; Provisional; Region: PRK09435 318586006857 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 318586006858 Walker A; other site 318586006859 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 318586006860 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 318586006861 DNA binding site [nucleotide binding] 318586006862 active site 318586006863 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 318586006864 conserved hypothetical protein; Region: TIGR02270 318586006865 PAAR motif; Region: PAAR_motif; cl15808 318586006866 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 318586006867 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 318586006868 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 318586006869 Clp amino terminal domain; Region: Clp_N; pfam02861 318586006870 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 318586006871 Walker A motif; other site 318586006872 ATP binding site [chemical binding]; other site 318586006873 Walker B motif; other site 318586006874 arginine finger; other site 318586006875 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 318586006876 Walker A motif; other site 318586006877 ATP binding site [chemical binding]; other site 318586006878 Walker B motif; other site 318586006879 arginine finger; other site 318586006880 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318586006881 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318586006882 active site 318586006883 ATP binding site [chemical binding]; other site 318586006884 substrate binding site [chemical binding]; other site 318586006885 activation loop (A-loop); other site 318586006886 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 318586006887 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 318586006888 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 318586006889 Protein of unknown function (DUF770); Region: DUF770; cl01402 318586006890 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 318586006891 Protein of unknown function (DUF877); Region: DUF877; pfam05943 318586006892 Protein of unknown function (DUF796); Region: DUF796; cl01226 318586006893 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 318586006894 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 318586006895 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 318586006896 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 318586006897 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 318586006898 phosphopeptide binding site; other site 318586006899 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 318586006900 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 318586006901 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 318586006902 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 318586006903 hypothetical protein; Provisional; Region: PRK07033 318586006904 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 318586006905 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318586006906 ligand binding site [chemical binding]; other site 318586006907 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 318586006908 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 318586006909 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 318586006910 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 318586006911 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 318586006912 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 318586006913 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 318586006914 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 318586006915 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 318586006916 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 318586006917 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 318586006918 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 318586006919 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 318586006920 active site 318586006921 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318586006922 ligand binding site [chemical binding]; other site 318586006923 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 318586006924 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318586006925 Surface antigen; Region: Bac_surface_Ag; cl03097 318586006926 haemagglutination activity domain; Region: Haemagg_act; cl05436 318586006927 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 318586006928 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 318586006929 substrate pocket [chemical binding]; other site 318586006930 active site 318586006931 proteolytic cleavage site; other site 318586006932 dimer interface [polypeptide binding]; other site 318586006933 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 318586006934 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586006935 Hint domain; Region: Hint_2; pfam13403 318586006936 LytTr DNA-binding domain; Region: LytTR; cl04498 318586006937 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 318586006938 Cation efflux family; Region: Cation_efflux; cl00316 318586006939 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 318586006940 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 318586006941 Walker A/P-loop; other site 318586006942 ATP binding site [chemical binding]; other site 318586006943 Q-loop/lid; other site 318586006944 ABC transporter signature motif; other site 318586006945 Walker B; other site 318586006946 D-loop; other site 318586006947 H-loop/switch region; other site 318586006948 TOBE domain; Region: TOBE_2; cl01440 318586006949 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 318586006950 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 318586006951 dimer interface [polypeptide binding]; other site 318586006952 conserved gate region; other site 318586006953 putative PBP binding loops; other site 318586006954 ABC-ATPase subunit interface; other site 318586006955 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 318586006956 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 318586006957 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 318586006958 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 318586006959 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 318586006960 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 318586006961 putative active site [active] 318586006962 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 318586006963 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 318586006964 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 318586006965 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586006966 DNA-binding site [nucleotide binding]; DNA binding site 318586006967 UTRA domain; Region: UTRA; cl01230 318586006968 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 318586006969 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 318586006970 dimer interface [polypeptide binding]; other site 318586006971 active site 318586006972 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 318586006973 dimer interface [polypeptide binding]; other site 318586006974 active site 318586006975 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 318586006976 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 318586006977 active site 318586006978 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 318586006979 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 318586006980 ligand binding site [chemical binding]; other site 318586006981 flexible hinge region; other site 318586006982 Helix-turn-helix domains; Region: HTH; cl00088 318586006983 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 318586006984 Subunit I/III interface [polypeptide binding]; other site 318586006985 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 318586006986 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 318586006987 metal ion-dependent adhesion site (MIDAS); other site 318586006988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586006989 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 318586006990 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 318586006991 Low-spin heme binding site [chemical binding]; other site 318586006992 D-pathway; other site 318586006993 Putative water exit pathway; other site 318586006994 Binuclear center (active site) [active] 318586006995 K-pathway; other site 318586006996 Putative proton exit pathway; other site 318586006997 Cytochrome c; Region: Cytochrom_C; cl11414 318586006998 ApbE family; Region: ApbE; cl00643 318586006999 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 318586007000 FMN-binding domain; Region: FMN_bind; cl01081 318586007001 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 318586007002 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318586007003 Cytochrome c; Region: Cytochrom_C; cl11414 318586007004 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 318586007005 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318586007006 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318586007007 Cytochrome c; Region: Cytochrom_C; cl11414 318586007008 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 318586007009 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 318586007010 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586007011 Helix-turn-helix domains; Region: HTH; cl00088 318586007012 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586007013 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586007014 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586007015 Helix-turn-helix domains; Region: HTH; cl00088 318586007016 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 318586007017 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 318586007018 FeS/SAM binding site; other site 318586007019 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 318586007020 Cytochrome c; Region: Cytochrom_C; cl11414 318586007021 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 318586007022 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 318586007023 structural tetrad; other site 318586007024 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 318586007025 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 318586007026 dimer interface [polypeptide binding]; other site 318586007027 active site 318586007028 heme binding site [chemical binding]; other site 318586007029 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 318586007030 primosome assembly protein PriA; Validated; Region: PRK05580 318586007031 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 318586007032 ATP binding site [chemical binding]; other site 318586007033 putative Mg++ binding site [ion binding]; other site 318586007034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007035 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 318586007036 active site 318586007037 intersubunit interactions; other site 318586007038 catalytic residue [active] 318586007039 GAF domain; Region: GAF; cl15785 318586007040 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 318586007041 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 318586007042 active site 318586007043 DNA binding site [nucleotide binding] 318586007044 Int/Topo IB signature motif; other site 318586007045 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318586007046 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318586007047 L-asparaginase II; Region: Asparaginase_II; cl01842 318586007048 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 318586007049 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 318586007050 Sulfatase; Region: Sulfatase; cl10460 318586007051 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 318586007052 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 318586007053 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 318586007054 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 318586007055 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 318586007056 protein binding site [polypeptide binding]; other site 318586007057 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 318586007058 Catalytic dyad [active] 318586007059 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 318586007060 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 318586007061 putative active site [active] 318586007062 Ap4A binding site [chemical binding]; other site 318586007063 nudix motif; other site 318586007064 putative metal binding site [ion binding]; other site 318586007065 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318586007066 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 318586007067 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586007068 catalytic residue [active] 318586007069 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 318586007070 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318586007071 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 318586007072 putative deacylase active site [active] 318586007073 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 318586007074 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 318586007075 trimer interface [polypeptide binding]; other site 318586007076 active site 318586007077 substrate binding site [chemical binding]; other site 318586007078 CoA binding site [chemical binding]; other site 318586007079 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 318586007080 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 318586007081 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 318586007082 Oligomerisation domain; Region: Oligomerisation; cl00519 318586007083 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 318586007084 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 318586007085 substrate binding site [chemical binding]; other site 318586007086 ligand binding site [chemical binding]; other site 318586007087 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 318586007088 substrate binding site [chemical binding]; other site 318586007089 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 318586007090 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 318586007091 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 318586007092 putative FMN binding site [chemical binding]; other site 318586007093 Protein of unknown function (DUF419); Region: DUF419; cl15265 318586007094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007095 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 318586007096 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 318586007097 homodimer interface [polypeptide binding]; other site 318586007098 Walker A motif; other site 318586007099 ATP binding site [chemical binding]; other site 318586007100 hydroxycobalamin binding site [chemical binding]; other site 318586007101 Walker B motif; other site 318586007102 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586007103 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 318586007104 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007105 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 318586007106 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 318586007107 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 318586007108 precorrin-3B synthase; Region: CobG; TIGR02435 318586007109 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318586007110 precorrin-3B synthase; Region: CobG; TIGR02435 318586007111 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 318586007112 Precorrin-8X methylmutase; Region: CbiC; pfam02570 318586007113 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318586007114 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318586007115 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318586007116 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318586007117 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 318586007118 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318586007119 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318586007120 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 318586007121 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318586007122 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318586007123 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 318586007124 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 318586007125 conserved cys residue [active] 318586007126 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318586007127 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318586007128 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586007129 Cytochrome C'; Region: Cytochrom_C_2; cl01610 318586007130 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 318586007131 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 318586007132 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 318586007133 CAP-like domain; other site 318586007134 active site 318586007135 primary dimer interface [polypeptide binding]; other site 318586007136 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318586007137 short chain dehydrogenase; Validated; Region: PRK06182 318586007138 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 318586007139 NADP binding site [chemical binding]; other site 318586007140 active site 318586007141 steroid binding site; other site 318586007142 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 318586007143 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 318586007144 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 318586007145 Ligand binding site [chemical binding]; other site 318586007146 Electron transfer flavoprotein domain; Region: ETF; pfam01012 318586007147 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 318586007148 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 318586007149 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 318586007150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586007151 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586007152 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 318586007153 dihydroorotase; Validated; Region: PRK09059 318586007154 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 318586007155 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 318586007156 active site 318586007157 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 318586007158 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 318586007159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586007160 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318586007161 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318586007162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007163 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 318586007164 CPxP motif; other site 318586007165 Membrane transport protein; Region: Mem_trans; cl09117 318586007166 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 318586007167 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 318586007168 substrate binding site [chemical binding]; other site 318586007169 oxyanion hole (OAH) forming residues; other site 318586007170 trimer interface [polypeptide binding]; other site 318586007171 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 318586007172 EamA-like transporter family; Region: EamA; cl01037 318586007173 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 318586007174 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 318586007175 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 318586007176 AMP-binding enzyme; Region: AMP-binding; cl15778 318586007177 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318586007178 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 318586007179 Uncharacterized conserved protein [Function unknown]; Region: COG3391 318586007180 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 318586007181 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 318586007182 intersubunit interface [polypeptide binding]; other site 318586007183 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 318586007184 dimer interface [polypeptide binding]; other site 318586007185 putative PBP binding regions; other site 318586007186 ABC-ATPase subunit interface; other site 318586007187 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586007188 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 318586007189 Walker A/P-loop; other site 318586007190 ATP binding site [chemical binding]; other site 318586007191 Q-loop/lid; other site 318586007192 ABC transporter signature motif; other site 318586007193 Walker B; other site 318586007194 D-loop; other site 318586007195 H-loop/switch region; other site 318586007196 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 318586007197 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 318586007198 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 318586007199 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 318586007200 substrate binding site [chemical binding]; other site 318586007201 hexamer interface [polypeptide binding]; other site 318586007202 metal binding site [ion binding]; metal-binding site 318586007203 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 318586007204 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 318586007205 dimerization interface [polypeptide binding]; other site 318586007206 domain crossover interface; other site 318586007207 redox-dependent activation switch; other site 318586007208 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 318586007209 putative active site [active] 318586007210 putative CoA binding site [chemical binding]; other site 318586007211 nudix motif; other site 318586007212 metal binding site [ion binding]; metal-binding site 318586007213 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 318586007214 active site 318586007215 NTP binding site [chemical binding]; other site 318586007216 metal binding triad [ion binding]; metal-binding site 318586007217 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 318586007218 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586007219 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586007220 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007221 Walker A/P-loop; other site 318586007222 ATP binding site [chemical binding]; other site 318586007223 Q-loop/lid; other site 318586007224 ABC transporter signature motif; other site 318586007225 Walker B; other site 318586007226 D-loop; other site 318586007227 H-loop/switch region; other site 318586007228 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 318586007229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 318586007230 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 318586007231 putative C-terminal domain interface [polypeptide binding]; other site 318586007232 putative GSH binding site (G-site) [chemical binding]; other site 318586007233 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586007234 putative dimer interface [polypeptide binding]; other site 318586007235 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318586007236 N-terminal domain interface [polypeptide binding]; other site 318586007237 dimer interface [polypeptide binding]; other site 318586007238 substrate binding pocket (H-site) [chemical binding]; other site 318586007239 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 318586007240 L,D-transpeptidase; Provisional; Region: PRK10190 318586007241 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586007242 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 318586007243 ferrochelatase; Reviewed; Region: hemH; PRK00035 318586007244 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 318586007245 C-terminal domain interface [polypeptide binding]; other site 318586007246 active site 318586007247 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 318586007248 active site 318586007249 N-terminal domain interface [polypeptide binding]; other site 318586007250 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 318586007251 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 318586007252 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 318586007253 GSH binding site [chemical binding]; other site 318586007254 catalytic residues [active] 318586007255 Predicted amidohydrolase [General function prediction only]; Region: COG0388 318586007256 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 318586007257 putative active site [active] 318586007258 catalytic triad [active] 318586007259 dimer interface [polypeptide binding]; other site 318586007260 Helix-turn-helix domains; Region: HTH; cl00088 318586007261 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 318586007262 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 318586007263 NAD(P) binding site [chemical binding]; other site 318586007264 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 318586007265 ribosome maturation protein RimP; Reviewed; Region: PRK00092 318586007266 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 318586007267 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 318586007268 Sm1 motif; other site 318586007269 D1 - D2 interaction site; other site 318586007270 D3 - B interaction site; other site 318586007271 Hfq - Hfq interaction site; other site 318586007272 RNA binding pocket [nucleotide binding]; other site 318586007273 Sm2 motif; other site 318586007274 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 318586007275 NusA N-terminal domain; Region: NusA_N; pfam08529 318586007276 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 318586007277 RNA binding site [nucleotide binding]; other site 318586007278 homodimer interface [polypeptide binding]; other site 318586007279 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 318586007280 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 318586007281 G-X-X-G motif; other site 318586007282 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 318586007283 hypothetical protein; Provisional; Region: PRK09190 318586007284 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 318586007285 putative RNA binding cleft [nucleotide binding]; other site 318586007286 translation initiation factor IF-2; Region: IF-2; TIGR00487 318586007287 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 318586007288 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 318586007289 G1 box; other site 318586007290 putative GEF interaction site [polypeptide binding]; other site 318586007291 GTP/Mg2+ binding site [chemical binding]; other site 318586007292 Switch I region; other site 318586007293 G2 box; other site 318586007294 G3 box; other site 318586007295 Switch II region; other site 318586007296 G4 box; other site 318586007297 G5 box; other site 318586007298 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 318586007299 Translation-initiation factor 2; Region: IF-2; pfam11987 318586007300 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 318586007301 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 318586007302 active site 318586007303 8-oxo-dGMP binding site [chemical binding]; other site 318586007304 nudix motif; other site 318586007305 metal binding site [ion binding]; metal-binding site 318586007306 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 318586007307 heterotetramer interface [polypeptide binding]; other site 318586007308 active site pocket [active] 318586007309 cleavage site 318586007310 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 318586007311 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318586007312 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 318586007313 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 318586007314 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 318586007315 nucleotide binding region [chemical binding]; other site 318586007316 ATP-binding site [chemical binding]; other site 318586007317 hypothetical protein; Provisional; Region: PRK02250 318586007318 SEC-C motif; Region: SEC-C; pfam02810 318586007319 osmolarity response regulator; Provisional; Region: ompR; PRK09468 318586007320 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 318586007321 active site 318586007322 phosphorylation site [posttranslational modification] 318586007323 intermolecular recognition site; other site 318586007324 dimerization interface [polypeptide binding]; other site 318586007325 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 318586007326 DNA binding site [nucleotide binding] 318586007327 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586007328 Helix-turn-helix domains; Region: HTH; cl00088 318586007329 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 318586007330 homodimer interface [polypeptide binding]; other site 318586007331 substrate-cofactor binding pocket; other site 318586007332 catalytic residue [active] 318586007333 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 318586007334 active site 318586007335 phosphorylation site [posttranslational modification] 318586007336 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 318586007337 30S subunit binding site; other site 318586007338 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 318586007339 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 318586007340 Walker A/P-loop; other site 318586007341 ATP binding site [chemical binding]; other site 318586007342 Q-loop/lid; other site 318586007343 ABC transporter signature motif; other site 318586007344 Walker B; other site 318586007345 D-loop; other site 318586007346 H-loop/switch region; other site 318586007347 OstA-like protein; Region: OstA; cl00844 318586007348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 318586007349 KpsF/GutQ family protein; Region: kpsF; TIGR00393 318586007350 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 318586007351 putative active site [active] 318586007352 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 318586007353 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 318586007354 catalytic site [active] 318586007355 putative active site [active] 318586007356 putative substrate binding site [chemical binding]; other site 318586007357 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 318586007358 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 318586007359 N-terminal plug; other site 318586007360 ligand-binding site [chemical binding]; other site 318586007361 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 318586007362 putative transporter; Provisional; Region: PRK11660 318586007363 Sulfate transporter family; Region: Sulfate_transp; cl15842 318586007364 Sulfate transporter family; Region: Sulfate_transp; cl15842 318586007365 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 318586007366 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 318586007367 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 318586007368 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 318586007369 putative active site [active] 318586007370 putative substrate binding site [chemical binding]; other site 318586007371 putative cosubstrate binding site; other site 318586007372 catalytic site [active] 318586007373 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 318586007374 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 318586007375 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 318586007376 homodimer interface [polypeptide binding]; other site 318586007377 NADP binding site [chemical binding]; other site 318586007378 substrate binding site [chemical binding]; other site 318586007379 patatin-related protein; Region: TIGR03607 318586007380 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 318586007381 Protein of unknown function (DUF3376); Region: DUF3376; pfam11856 318586007382 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 318586007383 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 318586007384 putative active site [active] 318586007385 Zn binding site [ion binding]; other site 318586007386 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 318586007387 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 318586007388 putative active site [active] 318586007389 metal binding site [ion binding]; metal-binding site 318586007390 glycerol kinase; Provisional; Region: glpK; PRK00047 318586007391 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 318586007392 N- and C-terminal domain interface [polypeptide binding]; other site 318586007393 active site 318586007394 MgATP binding site [chemical binding]; other site 318586007395 catalytic site [active] 318586007396 metal binding site [ion binding]; metal-binding site 318586007397 glycerol binding site [chemical binding]; other site 318586007398 homotetramer interface [polypeptide binding]; other site 318586007399 homodimer interface [polypeptide binding]; other site 318586007400 FBP binding site [chemical binding]; other site 318586007401 protein IIAGlc interface [polypeptide binding]; other site 318586007402 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 318586007403 Helix-turn-helix domains; Region: HTH; cl00088 318586007404 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 318586007405 kynureninase; Region: kynureninase; TIGR01814 318586007406 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 318586007407 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586007408 catalytic residue [active] 318586007409 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318586007410 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586007411 DNA binding site [nucleotide binding] 318586007412 domain linker motif; other site 318586007413 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 318586007414 ligand binding site [chemical binding]; other site 318586007415 Potato inhibitor I family; Region: potato_inhibit; cl15459 318586007416 Potato inhibitor I family; Region: potato_inhibit; cl15459 318586007417 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586007418 Helix-turn-helix domains; Region: HTH; cl00088 318586007419 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 318586007420 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 318586007421 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 318586007422 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 318586007423 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 318586007424 FHIPEP family; Region: FHIPEP; pfam00771 318586007425 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318586007426 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 318586007427 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 318586007428 Phage Terminase; Region: Terminase_1; pfam03354 318586007429 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 318586007430 Phage capsid family; Region: Phage_capsid; pfam05065 318586007431 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 318586007432 Phage-related protein [Function unknown]; Region: COG4695; cl01923 318586007433 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 318586007434 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 318586007435 active site 318586007436 DNA binding site [nucleotide binding] 318586007437 Int/Topo IB signature motif; other site 318586007438 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318586007439 MgtE intracellular N domain; Region: MgtE_N; cl15244 318586007440 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 318586007441 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 318586007442 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 318586007443 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 318586007444 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 318586007445 FliP family; Region: FliP; cl00593 318586007446 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318586007447 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 318586007448 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 318586007449 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318586007450 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 318586007451 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 318586007452 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318586007453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007454 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 318586007455 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 318586007456 ATP binding site [chemical binding]; other site 318586007457 ATP binding site [chemical binding]; other site 318586007458 putative Mg++ binding site [ion binding]; other site 318586007459 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 318586007460 nucleotide binding region [chemical binding]; other site 318586007461 ATP-binding site [chemical binding]; other site 318586007462 RQC domain; Region: RQC; cl09632 318586007463 HRDC domain; Region: HRDC; cl02578 318586007464 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 318586007465 active site 318586007466 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 318586007467 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 318586007468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 318586007469 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 318586007470 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586007471 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 318586007472 beta-ketothiolase; Provisional; Region: PRK09051 318586007473 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 318586007474 dimer interface [polypeptide binding]; other site 318586007475 active site 318586007476 Helix-turn-helix domains; Region: HTH; cl00088 318586007477 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 318586007478 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 318586007479 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 318586007480 dimer interface [polypeptide binding]; other site 318586007481 conserved gate region; other site 318586007482 putative PBP binding loops; other site 318586007483 ABC-ATPase subunit interface; other site 318586007484 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 318586007485 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007486 Walker A/P-loop; other site 318586007487 ATP binding site [chemical binding]; other site 318586007488 Q-loop/lid; other site 318586007489 ABC transporter signature motif; other site 318586007490 Walker B; other site 318586007491 D-loop; other site 318586007492 H-loop/switch region; other site 318586007493 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 318586007494 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 318586007495 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 318586007496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586007497 hypothetical protein; Provisional; Region: PRK06102 318586007498 Amidase; Region: Amidase; cl11426 318586007499 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 318586007500 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 318586007501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586007502 homodimer interface [polypeptide binding]; other site 318586007503 catalytic residue [active] 318586007504 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 318586007505 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007506 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 318586007507 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 318586007508 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 318586007509 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 318586007510 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 318586007511 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 318586007512 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 318586007513 putative substrate translocation pore; other site 318586007514 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586007515 Helix-turn-helix domains; Region: HTH; cl00088 318586007516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 318586007517 Family of unknown function (DUF490); Region: DUF490; pfam04357 318586007518 Family of unknown function (DUF490); Region: DUF490; pfam04357 318586007519 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 318586007520 Surface antigen; Region: Bac_surface_Ag; cl03097 318586007521 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 318586007522 glucokinase, proteobacterial type; Region: glk; TIGR00749 318586007523 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 318586007524 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 318586007525 oligomerization interface [polypeptide binding]; other site 318586007526 active site 318586007527 NAD+ binding site [chemical binding]; other site 318586007528 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 318586007529 nucleotide binding site/active site [active] 318586007530 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 318586007531 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 318586007532 substrate binding site [chemical binding]; other site 318586007533 oxyanion hole (OAH) forming residues; other site 318586007534 trimer interface [polypeptide binding]; other site 318586007535 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 318586007536 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 318586007537 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 318586007538 active site 318586007539 Flavin Reductases; Region: FlaRed; cl00801 318586007540 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 318586007541 Protein of unknown function (DUF330); Region: DUF330; cl01135 318586007542 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 318586007543 mce related protein; Region: MCE; pfam02470 318586007544 mce related protein; Region: MCE; pfam02470 318586007545 mce related protein; Region: MCE; pfam02470 318586007546 Paraquat-inducible protein A; Region: PqiA; pfam04403 318586007547 Paraquat-inducible protein A; Region: PqiA; pfam04403 318586007548 flagellar motor protein MotB; Validated; Region: motB; PRK09041 318586007549 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 318586007550 ligand binding site [chemical binding]; other site 318586007551 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 318586007552 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 318586007553 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318586007554 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 318586007555 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 318586007556 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318586007557 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 318586007558 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318586007559 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 318586007560 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 318586007561 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 318586007562 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586007563 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586007564 oxaloacetate decarboxylase; Provisional; Region: PRK12330 318586007565 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 318586007566 active site clefts [active] 318586007567 zinc binding site [ion binding]; other site 318586007568 dimer interface [polypeptide binding]; other site 318586007569 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 318586007570 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 318586007571 interface (dimer of trimers) [polypeptide binding]; other site 318586007572 Substrate-binding/catalytic site; other site 318586007573 Zn-binding sites [ion binding]; other site 318586007574 NlpC/P60 family; Region: NLPC_P60; cl11438 318586007575 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 318586007576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586007577 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 318586007578 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 318586007579 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 318586007580 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 318586007581 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 318586007582 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 318586007583 ATP binding site [chemical binding]; other site 318586007584 Mg2+ binding site [ion binding]; other site 318586007585 G-X-G motif; other site 318586007586 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 318586007587 ATP binding site [chemical binding]; other site 318586007588 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 318586007589 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318586007590 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318586007591 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318586007592 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318586007593 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318586007594 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 318586007595 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 318586007596 lipoprotein signal peptidase; Provisional; Region: PRK14787 318586007597 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 318586007598 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 318586007599 purine monophosphate binding site [chemical binding]; other site 318586007600 dimer interface [polypeptide binding]; other site 318586007601 putative catalytic residues [active] 318586007602 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 318586007603 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 318586007604 16S rRNA methyltransferase B; Provisional; Region: PRK14904 318586007605 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 318586007606 S-adenosylmethionine binding site [chemical binding]; other site 318586007607 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 318586007608 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 318586007609 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 318586007610 selenophosphate synthetase; Provisional; Region: PRK00943 318586007611 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 318586007612 dimerization interface [polypeptide binding]; other site 318586007613 putative ATP binding site [chemical binding]; other site 318586007614 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 318586007615 CoenzymeA binding site [chemical binding]; other site 318586007616 subunit interaction site [polypeptide binding]; other site 318586007617 PHB binding site; other site 318586007618 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 318586007619 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 318586007620 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 318586007621 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 318586007622 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318586007623 Peptidase family M23; Region: Peptidase_M23; pfam01551 318586007624 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 318586007625 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 318586007626 S-adenosylmethionine binding site [chemical binding]; other site 318586007627 Survival protein SurE; Region: SurE; cl00448 318586007628 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318586007629 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 318586007630 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586007631 Protein of unknown function, DUF482; Region: DUF482; pfam04339 318586007632 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 318586007633 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 318586007634 active site 318586007635 catalytic site [active] 318586007636 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 318586007637 homotrimer interaction site [polypeptide binding]; other site 318586007638 putative active site [active] 318586007639 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 318586007640 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 318586007641 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 318586007642 Walker A/P-loop; other site 318586007643 ATP binding site [chemical binding]; other site 318586007644 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 318586007645 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 318586007646 Walker B; other site 318586007647 D-loop; other site 318586007648 H-loop/switch region; other site 318586007649 LrgA family; Region: LrgA; cl00608 318586007650 LrgB-like family; Region: LrgB; cl00596 318586007651 elongation factor P; Validated; Region: PRK00529 318586007652 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 318586007653 RNA binding site [nucleotide binding]; other site 318586007654 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 318586007655 RNA binding site [nucleotide binding]; other site 318586007656 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586007657 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 318586007658 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 318586007659 putative ligand binding site [chemical binding]; other site 318586007660 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 318586007661 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 318586007662 Walker A/P-loop; other site 318586007663 ATP binding site [chemical binding]; other site 318586007664 Q-loop/lid; other site 318586007665 ABC transporter signature motif; other site 318586007666 Walker B; other site 318586007667 D-loop; other site 318586007668 H-loop/switch region; other site 318586007669 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 318586007670 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 318586007671 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 318586007672 TM-ABC transporter signature motif; other site 318586007673 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 318586007674 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 318586007675 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 318586007676 active site 318586007677 intersubunit interface [polypeptide binding]; other site 318586007678 catalytic residue [active] 318586007679 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 318586007680 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 318586007681 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 318586007682 active site 318586007683 catalytic residues [active] 318586007684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586007685 DNA-binding site [nucleotide binding]; DNA binding site 318586007686 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586007687 FCD domain; Region: FCD; cl11656 318586007688 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 318586007689 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586007690 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 318586007691 classical (c) SDRs; Region: SDR_c; cd05233 318586007692 NAD(P) binding site [chemical binding]; other site 318586007693 active site 318586007694 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 318586007695 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586007696 NAD binding site [chemical binding]; other site 318586007697 catalytic residues [active] 318586007698 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 318586007699 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 318586007700 dimer interface [polypeptide binding]; other site 318586007701 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318586007702 catalytic triad [active] 318586007703 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 318586007704 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 318586007705 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 318586007706 RNase E interface [polypeptide binding]; other site 318586007707 trimer interface [polypeptide binding]; other site 318586007708 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 318586007709 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 318586007710 RNase E interface [polypeptide binding]; other site 318586007711 trimer interface [polypeptide binding]; other site 318586007712 active site 318586007713 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 318586007714 putative nucleic acid binding region [nucleotide binding]; other site 318586007715 G-X-X-G motif; other site 318586007716 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 318586007717 RNA binding site [nucleotide binding]; other site 318586007718 domain interface; other site 318586007719 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 318586007720 16S/18S rRNA binding site [nucleotide binding]; other site 318586007721 S13e-L30e interaction site [polypeptide binding]; other site 318586007722 25S rRNA binding site [nucleotide binding]; other site 318586007723 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586007724 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 318586007725 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318586007726 catalytic residue [active] 318586007727 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 318586007728 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 318586007729 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 318586007730 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 318586007731 HIGH motif; other site 318586007732 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 318586007733 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586007734 active site 318586007735 KMSKS motif; other site 318586007736 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 318586007737 tRNA binding surface [nucleotide binding]; other site 318586007738 Lipopolysaccharide-assembly; Region: LptE; cl01125 318586007739 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 318586007740 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; cl00470 318586007741 catalytic tetrad [active] 318586007742 Predicted flavoproteins [General function prediction only]; Region: COG2081 318586007743 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586007744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586007745 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 318586007746 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586007747 putative C-terminal domain interface [polypeptide binding]; other site 318586007748 putative GSH binding site (G-site) [chemical binding]; other site 318586007749 putative dimer interface [polypeptide binding]; other site 318586007750 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318586007751 dimer interface [polypeptide binding]; other site 318586007752 N-terminal domain interface [polypeptide binding]; other site 318586007753 substrate binding pocket (H-site) [chemical binding]; other site 318586007754 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 318586007755 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586007756 putative substrate translocation pore; other site 318586007757 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586007758 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 318586007759 putative substrate translocation pore; other site 318586007760 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586007761 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 318586007762 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 318586007763 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 318586007764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586007765 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318586007766 conserved hypothetical protein; Region: TIGR02231 318586007767 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 318586007768 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 318586007769 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 318586007770 nucleosidase; Provisional; Region: PRK05634 318586007771 PAS fold; Region: PAS_7; pfam12860 318586007772 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318586007773 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 318586007774 ATP binding site [chemical binding]; other site 318586007775 Mg2+ binding site [ion binding]; other site 318586007776 G-X-G motif; other site 318586007777 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 318586007778 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 318586007779 Cu(I) binding site [ion binding]; other site 318586007780 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 318586007781 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 318586007782 active site 318586007783 phosphorylation site [posttranslational modification] 318586007784 intermolecular recognition site; other site 318586007785 dimerization interface [polypeptide binding]; other site 318586007786 H-NS histone family; Region: Histone_HNS; pfam00816 318586007787 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 318586007788 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318586007789 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 318586007790 SecA binding site; other site 318586007791 Preprotein binding site; other site 318586007792 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 318586007793 Tim44-like domain; Region: Tim44; cl09208 318586007794 Smr domain; Region: Smr; cl02619 318586007795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 318586007796 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 318586007797 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 318586007798 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 318586007799 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007800 Walker A motif; other site 318586007801 ATP binding site [chemical binding]; other site 318586007802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007803 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318586007804 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 318586007805 active site 318586007806 HslU subunit interaction site [polypeptide binding]; other site 318586007807 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 318586007808 catalytic residues [active] 318586007809 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 318586007810 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007811 Family description; Region: UvrD_C_2; cl15862 318586007812 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 318586007813 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 318586007814 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 318586007815 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 318586007816 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 318586007817 Substrate binding site; other site 318586007818 metal-binding site 318586007819 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 318586007820 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586007821 Phosphotransferase enzyme family; Region: APH; pfam01636 318586007822 dihydrodipicolinate reductase; Provisional; Region: PRK00048 318586007823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586007824 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 318586007825 Ribosome-binding factor A; Region: RBFA; cl00542 318586007826 Predicted periplasmic protein [Function unknown]; Region: COG3698 318586007827 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 318586007828 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 318586007829 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 318586007830 RNA binding site [nucleotide binding]; other site 318586007831 active site 318586007832 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 318586007833 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 318586007834 tetramer interface [polypeptide binding]; other site 318586007835 active site 318586007836 Mg2+/Mn2+ binding site [ion binding]; other site 318586007837 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586007838 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318586007839 active site 318586007840 LysE type translocator; Region: LysE; cl00565 318586007841 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318586007842 GAF domain; Region: GAF; cl15785 318586007843 extended (e) SDRs; Region: SDR_e; cd08946 318586007844 NAD(P) binding site [chemical binding]; other site 318586007845 active site 318586007846 substrate binding site [chemical binding]; other site 318586007847 Glycogenin belongs the GT 8 family and initiates the biosynthesis of glycogen; Region: GT8_Glycogenin; cd02537 318586007848 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 318586007849 substrate binding site; other site 318586007850 Manganese binding site; other site 318586007851 dimer interface; other site 318586007852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586007853 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 318586007854 NAD(P) binding site [chemical binding]; other site 318586007855 active site 318586007856 Helix-turn-helix domains; Region: HTH; cl00088 318586007857 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 318586007858 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 318586007859 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 318586007860 shikimate binding site; other site 318586007861 NAD(P) binding site [chemical binding]; other site 318586007862 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 318586007863 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 318586007864 CoA-binding site [chemical binding]; other site 318586007865 ATP-binding [chemical binding]; other site 318586007866 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 318586007867 active site 318586007868 catalytic site [active] 318586007869 substrate binding site [chemical binding]; other site 318586007870 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 318586007871 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318586007872 LysE type translocator; Region: LysE; cl00565 318586007873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 318586007874 Histidine kinase; Region: HisKA_2; cl06527 318586007875 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 318586007876 RNA polymerase sigma factor; Provisional; Region: PRK12546 318586007877 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586007878 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 318586007879 two-component response regulator; Provisional; Region: PRK09191 318586007880 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 318586007881 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 318586007882 active site 318586007883 phosphorylation site [posttranslational modification] 318586007884 intermolecular recognition site; other site 318586007885 dimerization interface [polypeptide binding]; other site 318586007886 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 318586007887 FMN binding site [chemical binding]; other site 318586007888 substrate binding site [chemical binding]; other site 318586007889 putative catalytic residue [active] 318586007890 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 318586007891 active site 318586007892 catalytic tetrad [active] 318586007893 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 318586007894 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 318586007895 G1 box; other site 318586007896 putative GEF interaction site [polypeptide binding]; other site 318586007897 GTP/Mg2+ binding site [chemical binding]; other site 318586007898 Switch I region; other site 318586007899 G2 box; other site 318586007900 G3 box; other site 318586007901 Switch II region; other site 318586007902 G4 box; other site 318586007903 G5 box; other site 318586007904 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 318586007905 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 318586007906 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 318586007907 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 318586007908 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 318586007909 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 318586007910 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 318586007911 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 318586007912 4Fe-4S binding domain; Region: Fer4; cl02805 318586007913 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 318586007914 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 318586007915 molybdopterin cofactor binding site; other site 318586007916 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 318586007917 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 318586007918 molybdopterin cofactor binding site; other site 318586007919 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 318586007920 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 318586007921 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 318586007922 FAD binding pocket [chemical binding]; other site 318586007923 FAD binding motif [chemical binding]; other site 318586007924 phosphate binding motif [ion binding]; other site 318586007925 beta-alpha-beta structure motif; other site 318586007926 NAD binding pocket [chemical binding]; other site 318586007927 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 318586007928 catalytic loop [active] 318586007929 iron binding site [ion binding]; other site 318586007930 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 318586007931 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 318586007932 [2Fe-2S] cluster binding site [ion binding]; other site 318586007933 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 318586007934 putative alpha subunit interface [polypeptide binding]; other site 318586007935 putative active site [active] 318586007936 putative substrate binding site [chemical binding]; other site 318586007937 Fe binding site [ion binding]; other site 318586007938 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 318586007939 DnaA N-terminal domain; Region: DnaA_N; pfam11638 318586007940 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 318586007941 Walker A motif; other site 318586007942 ATP binding site [chemical binding]; other site 318586007943 Walker B motif; other site 318586007944 arginine finger; other site 318586007945 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 318586007946 DnaA box-binding interface [nucleotide binding]; other site 318586007947 DNA polymerase III subunit beta; Validated; Region: PRK05643 318586007948 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 318586007949 putative DNA binding surface [nucleotide binding]; other site 318586007950 dimer interface [polypeptide binding]; other site 318586007951 beta-clamp/clamp loader binding surface; other site 318586007952 beta-clamp/translesion DNA polymerase binding surface; other site 318586007953 recombination protein F; Reviewed; Region: recF; PRK00064 318586007954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007955 Walker A/P-loop; other site 318586007956 ATP binding site [chemical binding]; other site 318586007957 Q-loop/lid; other site 318586007958 ABC transporter signature motif; other site 318586007959 Walker B; other site 318586007960 D-loop; other site 318586007961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586007962 H-loop/switch region; other site 318586007963 ABC transporter signature motif; other site 318586007964 Walker B; other site 318586007965 D-loop; other site 318586007966 H-loop/switch region; other site 318586007967 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 318586007968 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 318586007969 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 318586007970 active site 318586007971 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 318586007972 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 318586007973 Recombination protein O N terminal; Region: RecO_N; cl15812 318586007974 Recombination protein O C terminal; Region: RecO_C; pfam02565 318586007975 META domain; Region: META; cl01245 318586007976 META domain; Region: META; cl01245 318586007977 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586007978 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586007979 active site 318586007980 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318586007981 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 318586007982 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 318586007983 metal binding site [ion binding]; metal-binding site 318586007984 dimer interface [polypeptide binding]; other site 318586007985 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318586007986 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586007987 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 318586007988 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 318586007989 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586007990 Helix-turn-helix domains; Region: HTH; cl00088 318586007991 WHG domain; Region: WHG; pfam13305 318586007992 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 318586007993 dimerization domain swap beta strand [polypeptide binding]; other site 318586007994 regulatory protein interface [polypeptide binding]; other site 318586007995 active site 318586007996 regulatory phosphorylation site [posttranslational modification]; other site 318586007997 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 318586007998 active pocket/dimerization site; other site 318586007999 active site 318586008000 phosphorylation site [posttranslational modification] 318586008001 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 318586008002 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 318586008003 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 318586008004 Hpr binding site; other site 318586008005 active site 318586008006 homohexamer subunit interaction site [polypeptide binding]; other site 318586008007 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 318586008008 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 318586008009 active site 318586008010 substrate-binding site [chemical binding]; other site 318586008011 metal-binding site [ion binding] 318586008012 ATP binding site [chemical binding]; other site 318586008013 ribonuclease R; Region: RNase_R; TIGR02063 318586008014 RNB domain; Region: RNB; pfam00773 318586008015 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 318586008016 RNA binding site [nucleotide binding]; other site 318586008017 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 318586008018 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 318586008019 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 318586008020 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 318586008021 catalytic loop [active] 318586008022 iron binding site [ion binding]; other site 318586008023 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 318586008024 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 318586008025 [4Fe-4S] binding site [ion binding]; other site 318586008026 molybdopterin cofactor binding site; other site 318586008027 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 318586008028 molybdopterin cofactor binding site; other site 318586008029 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 318586008030 putative dimer interface [polypeptide binding]; other site 318586008031 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 318586008032 SLBB domain; Region: SLBB; pfam10531 318586008033 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 318586008034 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 318586008035 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 318586008036 putative dimer interface [polypeptide binding]; other site 318586008037 [2Fe-2S] cluster binding site [ion binding]; other site 318586008038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586008039 Helix-turn-helix domains; Region: HTH; cl00088 318586008040 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 318586008041 dimerization interface [polypeptide binding]; other site 318586008042 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 318586008043 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 318586008044 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 318586008045 ATP binding site [chemical binding]; other site 318586008046 active site 318586008047 substrate binding site [chemical binding]; other site 318586008048 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 318586008049 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 318586008050 MatE; Region: MatE; cl10513 318586008051 MatE; Region: MatE; cl10513 318586008052 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 318586008053 CoenzymeA binding site [chemical binding]; other site 318586008054 subunit interaction site [polypeptide binding]; other site 318586008055 PHB binding site; other site 318586008056 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 318586008057 CoenzymeA binding site [chemical binding]; other site 318586008058 subunit interaction site [polypeptide binding]; other site 318586008059 PHB binding site; other site 318586008060 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 318586008061 DNA binding residues [nucleotide binding] 318586008062 putative dimer interface [polypeptide binding]; other site 318586008063 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318586008064 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 318586008065 DNA binding residues [nucleotide binding] 318586008066 putative dimer interface [polypeptide binding]; other site 318586008067 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318586008068 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318586008069 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586008070 active site 318586008071 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318586008072 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586008073 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 318586008074 putative C-terminal domain interface [polypeptide binding]; other site 318586008075 putative GSH binding site (G-site) [chemical binding]; other site 318586008076 putative dimer interface [polypeptide binding]; other site 318586008077 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318586008078 N-terminal domain interface [polypeptide binding]; other site 318586008079 dimer interface [polypeptide binding]; other site 318586008080 substrate binding pocket (H-site) [chemical binding]; other site 318586008081 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 318586008082 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 318586008083 dimer interface [polypeptide binding]; other site 318586008084 active site 318586008085 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 318586008086 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 318586008087 substrate binding site [chemical binding]; other site 318586008088 oxyanion hole (OAH) forming residues; other site 318586008089 trimer interface [polypeptide binding]; other site 318586008090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586008091 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586008092 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586008093 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 318586008094 substrate binding site [chemical binding]; other site 318586008095 ATP binding site [chemical binding]; other site 318586008096 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 318586008097 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318586008098 minor groove reading motif; other site 318586008099 helix-hairpin-helix signature motif; other site 318586008100 substrate binding pocket [chemical binding]; other site 318586008101 active site 318586008102 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 318586008103 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 318586008104 DNA binding site [nucleotide binding] 318586008105 active site 318586008106 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318586008107 ligand binding site [chemical binding]; other site 318586008108 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 318586008109 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 318586008110 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 318586008111 ATP synthase subunit C; Region: ATP-synt_C; cl00466 318586008112 ATP synthase A chain; Region: ATP-synt_A; cl00413 318586008113 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 318586008114 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 318586008115 dimerization interface [polypeptide binding]; other site 318586008116 putative DNA binding site [nucleotide binding]; other site 318586008117 putative Zn2+ binding site [ion binding]; other site 318586008118 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 318586008119 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 318586008120 active site 318586008121 metal binding site [ion binding]; metal-binding site 318586008122 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318586008123 Protein of unknown function (DUF952); Region: DUF952; cl01393 318586008124 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 318586008125 quinone interaction residues [chemical binding]; other site 318586008126 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 318586008127 active site 318586008128 catalytic residues [active] 318586008129 FMN binding site [chemical binding]; other site 318586008130 substrate binding site [chemical binding]; other site 318586008131 serine acetyltransferase; Provisional; Region: cysE; PRK11132 318586008132 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 318586008133 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 318586008134 trimer interface [polypeptide binding]; other site 318586008135 active site 318586008136 substrate binding site [chemical binding]; other site 318586008137 CoA binding site [chemical binding]; other site 318586008138 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 318586008139 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 318586008140 Putative phage tail protein; Region: Phage-tail_3; pfam13550 318586008141 NlpC/P60 family; Region: NLPC_P60; cl11438 318586008142 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 318586008143 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 318586008144 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 318586008145 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 318586008146 Phage-related minor tail protein [Function unknown]; Region: COG5281 318586008147 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 318586008148 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 318586008149 Phage major tail protein 2; Region: Phage_tail_2; cl11463 318586008150 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 318586008151 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 318586008152 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 318586008153 Phage capsid family; Region: Phage_capsid; pfam05065 318586008154 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 318586008155 Phage-related protein [Function unknown]; Region: COG4695; cl01923 318586008156 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 318586008157 Uncharacterized conserved protein [Function unknown]; Region: COG5323 318586008158 YceG-like family; Region: YceG; pfam02618 318586008159 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 318586008160 dimerization interface [polypeptide binding]; other site 318586008161 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 318586008162 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 318586008163 dimer interface [polypeptide binding]; other site 318586008164 active site 318586008165 enoyl-CoA hydratase; Provisional; Region: PRK05862 318586008166 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 318586008167 substrate binding site [chemical binding]; other site 318586008168 oxyanion hole (OAH) forming residues; other site 318586008169 trimer interface [polypeptide binding]; other site 318586008170 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586008171 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586008172 active site 318586008173 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 318586008174 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 318586008175 dimer interface [polypeptide binding]; other site 318586008176 active site 318586008177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586008178 short chain dehydrogenase; Provisional; Region: PRK06841 318586008179 NAD(P) binding site [chemical binding]; other site 318586008180 active site 318586008181 acetyl-CoA synthetase; Provisional; Region: PRK04319 318586008182 AMP-binding enzyme; Region: AMP-binding; cl15778 318586008183 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586008184 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 318586008185 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586008186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586008187 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 318586008188 ParB-like nuclease domain; Region: ParBc; cl02129 318586008189 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 318586008190 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 318586008191 P-loop; other site 318586008192 Magnesium ion binding site [ion binding]; other site 318586008193 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 318586008194 Magnesium ion binding site [ion binding]; other site 318586008195 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 318586008196 DnaA N-terminal domain; Region: DnaA_N; pfam11638 318586008197 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 318586008198 biotin synthase; Region: bioB; TIGR00433 318586008199 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 318586008200 FeS/SAM binding site; other site 318586008201 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 318586008202 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 318586008203 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586008204 catalytic residue [active] 318586008205 AAA domain; Region: AAA_26; pfam13500 318586008206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008207 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 318586008208 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 318586008209 inhibitor-cofactor binding pocket; inhibition site 318586008210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586008211 catalytic residue [active] 318586008212 Protein of unknown function (DUF452); Region: DUF452; cl01062 318586008213 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 318586008214 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586008215 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586008216 DNA-binding site [nucleotide binding]; DNA binding site 318586008217 FCD domain; Region: FCD; cl11656 318586008218 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 318586008219 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 318586008220 iron-sulfur cluster-binding protein; Region: TIGR00273 318586008221 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 318586008222 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 318586008223 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 318586008224 Cysteine-rich domain; Region: CCG; pfam02754 318586008225 Cysteine-rich domain; Region: CCG; pfam02754 318586008226 L-lactate permease; Region: Lactate_perm; cl00701 318586008227 D-lactate dehydrogenase; Provisional; Region: PRK11183 318586008228 FAD binding domain; Region: FAD_binding_4; pfam01565 318586008229 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 318586008230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586008231 DNA-binding site [nucleotide binding]; DNA binding site 318586008232 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 318586008233 FCD domain; Region: FCD; cl11656 318586008234 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 318586008235 GntP family permease; Region: GntP_permease; pfam02447 318586008236 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 318586008237 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 318586008238 ATP-binding site [chemical binding]; other site 318586008239 Gluconate-6-phosphate binding site [chemical binding]; other site 318586008240 Dehydratase family; Region: ILVD_EDD; cl00340 318586008241 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318586008242 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 318586008243 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318586008244 putative acyl-acceptor binding pocket; other site 318586008245 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 318586008246 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 318586008247 Walker A/P-loop; other site 318586008248 ATP binding site [chemical binding]; other site 318586008249 Q-loop/lid; other site 318586008250 ABC transporter signature motif; other site 318586008251 Walker B; other site 318586008252 D-loop; other site 318586008253 H-loop/switch region; other site 318586008254 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318586008255 FtsX-like permease family; Region: FtsX; cl15850 318586008256 macrolide transporter subunit MacA; Provisional; Region: PRK11578 318586008257 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 318586008258 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 318586008259 Helix-turn-helix domains; Region: HTH; cl00088 318586008260 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 318586008261 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 318586008262 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 318586008263 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 318586008264 Protein export membrane protein; Region: SecD_SecF; cl14618 318586008265 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 318586008266 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 318586008267 ThiC-associated domain; Region: ThiC-associated; pfam13667 318586008268 ThiC family; Region: ThiC; cl08031 318586008269 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 318586008270 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 318586008271 putative substrate binding site [chemical binding]; other site 318586008272 putative ATP binding site [chemical binding]; other site 318586008273 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 318586008274 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 318586008275 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 318586008276 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 318586008277 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 318586008278 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 318586008279 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 318586008280 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 318586008281 conserved cys residue [active] 318586008282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586008283 Domain of unknown function DUF20; Region: UPF0118; pfam01594 318586008284 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 318586008285 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 318586008286 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 318586008287 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 318586008288 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 318586008289 dimer interface [polypeptide binding]; other site 318586008290 active site 318586008291 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318586008292 catalytic residues [active] 318586008293 substrate binding site [chemical binding]; other site 318586008294 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 318586008295 Helix-turn-helix domains; Region: HTH; cl00088 318586008296 Rrf2 family protein; Region: rrf2_super; TIGR00738 318586008297 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 318586008298 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318586008299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318586008300 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 318586008301 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 318586008302 putative active site [active] 318586008303 catalytic triad [active] 318586008304 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 318586008305 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 318586008306 dimer interface [polypeptide binding]; other site 318586008307 phosphorylation site [posttranslational modification] 318586008308 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 318586008309 ATP binding site [chemical binding]; other site 318586008310 Mg2+ binding site [ion binding]; other site 318586008311 G-X-G motif; other site 318586008312 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318586008313 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 318586008314 active site 318586008315 phosphorylation site [posttranslational modification] 318586008316 intermolecular recognition site; other site 318586008317 dimerization interface [polypeptide binding]; other site 318586008318 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 318586008319 Walker A motif; other site 318586008320 ATP binding site [chemical binding]; other site 318586008321 Walker B motif; other site 318586008322 arginine finger; other site 318586008323 Helix-turn-helix domains; Region: HTH; cl00088 318586008324 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 318586008325 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 318586008326 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 318586008327 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 318586008328 enoyl-CoA hydratase; Validated; Region: PRK08139 318586008329 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 318586008330 substrate binding site [chemical binding]; other site 318586008331 oxyanion hole (OAH) forming residues; other site 318586008332 trimer interface [polypeptide binding]; other site 318586008333 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 318586008334 CoenzymeA binding site [chemical binding]; other site 318586008335 subunit interaction site [polypeptide binding]; other site 318586008336 PHB binding site; other site 318586008337 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 318586008338 23S rRNA interface [nucleotide binding]; other site 318586008339 L3 interface [polypeptide binding]; other site 318586008340 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 318586008341 fimbrial chaperone protein; Provisional; Region: lfpB; PRK15290 318586008342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008343 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586008344 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586008345 Secretin and TonB N terminus short domain; Region: STN; cl06624 318586008346 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 318586008347 N-terminal plug; other site 318586008348 ligand-binding site [chemical binding]; other site 318586008349 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 318586008350 FecR protein; Region: FecR; pfam04773 318586008351 RNA polymerase sigma factor; Reviewed; Region: PRK12527 318586008352 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 318586008353 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 318586008354 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 318586008355 putative ligand binding residues [chemical binding]; other site 318586008356 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 318586008357 ABC-ATPase subunit interface; other site 318586008358 dimer interface [polypeptide binding]; other site 318586008359 putative PBP binding regions; other site 318586008360 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586008361 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 318586008362 Walker A/P-loop; other site 318586008363 ATP binding site [chemical binding]; other site 318586008364 Q-loop/lid; other site 318586008365 ABC transporter signature motif; other site 318586008366 Walker B; other site 318586008367 D-loop; other site 318586008368 H-loop/switch region; other site 318586008369 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318586008370 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 318586008371 S-adenosylmethionine binding site [chemical binding]; other site 318586008372 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 318586008373 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 318586008374 active site 318586008375 metal binding site [ion binding]; metal-binding site 318586008376 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 318586008377 [benzylsuccinate synthase]-activating enzyme; Region: rSAM_BssD; TIGR04003 318586008378 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 318586008379 FeS/SAM binding site; other site 318586008380 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 318586008381 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 318586008382 Class III ribonucleotide reductase; Region: RNR_III; cd01675 318586008383 effector binding site; other site 318586008384 active site 318586008385 Zn binding site [ion binding]; other site 318586008386 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318586008387 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 318586008388 active site 318586008389 phosphorylation site [posttranslational modification] 318586008390 intermolecular recognition site; other site 318586008391 dimerization interface [polypeptide binding]; other site 318586008392 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 318586008393 DNA binding residues [nucleotide binding] 318586008394 dimerization interface [polypeptide binding]; other site 318586008395 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 318586008396 Histidine kinase; Region: HisKA_3; pfam07730 318586008397 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 318586008398 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 318586008399 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 318586008400 Trp docking motif [polypeptide binding]; other site 318586008401 dimer interface [polypeptide binding]; other site 318586008402 active site 318586008403 small subunit binding site [polypeptide binding]; other site 318586008404 methanol oxidation system protein MoxJ; Region: ABC_MoxJ; TIGR03870 318586008405 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; cl15306 318586008406 substrate binding pocket [chemical binding]; other site 318586008407 membrane-bound complex binding site; other site 318586008408 hinge residues; other site 318586008409 Cytochrome c; Region: Cytochrom_C; cl11414 318586008410 Methanol dehydrogenase beta subunit; Region: MDH; pfam02315 318586008411 MoxR-like ATPases [General function prediction only]; Region: COG0714 318586008412 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 318586008413 Walker A motif; other site 318586008414 ATP binding site [chemical binding]; other site 318586008415 Walker B motif; other site 318586008416 arginine finger; other site 318586008417 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; cd00198 318586008418 metal ion-dependent adhesion site (MIDAS); other site 318586008419 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 318586008420 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 318586008421 putative hydrophobic ligand binding site [chemical binding]; other site 318586008422 protein interface [polypeptide binding]; other site 318586008423 gate; other site 318586008424 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 318586008425 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586008426 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586008427 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 318586008428 N-terminal plug; other site 318586008429 ligand-binding site [chemical binding]; other site 318586008430 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 318586008431 AMP-binding enzyme; Region: AMP-binding; cl15778 318586008432 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586008433 Chorismate mutase type II; Region: CM_2; cl00693 318586008434 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 318586008435 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 318586008436 intersubunit interface [polypeptide binding]; other site 318586008437 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 318586008438 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 318586008439 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 318586008440 ABC-ATPase subunit interface; other site 318586008441 dimer interface [polypeptide binding]; other site 318586008442 putative PBP binding regions; other site 318586008443 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586008444 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 318586008445 Walker A/P-loop; other site 318586008446 ATP binding site [chemical binding]; other site 318586008447 Q-loop/lid; other site 318586008448 ABC transporter signature motif; other site 318586008449 Walker B; other site 318586008450 D-loop; other site 318586008451 H-loop/switch region; other site 318586008452 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586008453 Condensation domain; Region: Condensation; pfam00668 318586008454 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 318586008455 Nonribosomal peptide synthase; Region: NRPS; pfam08415 318586008456 peptide synthase; Validated; Region: PRK05691 318586008457 Nonribosomal peptide synthase; Region: NRPS; pfam08415 318586008458 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 318586008459 AMP-binding enzyme; Region: AMP-binding; cl15778 318586008460 peptide synthase; Validated; Region: PRK05691 318586008461 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586008462 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318586008463 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586008464 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586008465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008466 Walker A/P-loop; other site 318586008467 ATP binding site [chemical binding]; other site 318586008468 Q-loop/lid; other site 318586008469 ABC transporter signature motif; other site 318586008470 Walker B; other site 318586008471 D-loop; other site 318586008472 H-loop/switch region; other site 318586008473 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586008474 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586008475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008476 Walker A/P-loop; other site 318586008477 ATP binding site [chemical binding]; other site 318586008478 Q-loop/lid; other site 318586008479 ABC transporter signature motif; other site 318586008480 Walker B; other site 318586008481 D-loop; other site 318586008482 H-loop/switch region; other site 318586008483 FOG: CBS domain [General function prediction only]; Region: COG0517 318586008484 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_6; cd04619 318586008485 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 318586008486 putative SdhC subunit interface [polypeptide binding]; other site 318586008487 putative proximal heme binding site [chemical binding]; other site 318586008488 putative Iron-sulfur protein interface [polypeptide binding]; other site 318586008489 putative proximal quinone binding site; other site 318586008490 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 318586008491 Iron-sulfur protein interface; other site 318586008492 proximal quinone binding site [chemical binding]; other site 318586008493 SdhD (CybS) interface [polypeptide binding]; other site 318586008494 proximal heme binding site [chemical binding]; other site 318586008495 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 318586008496 Helix-turn-helix domains; Region: HTH; cl00088 318586008497 Rrf2 family protein; Region: rrf2_super; TIGR00738 318586008498 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 318586008499 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 318586008500 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 318586008501 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 318586008502 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586008503 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 318586008504 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 318586008505 Subunit I/III interface [polypeptide binding]; other site 318586008506 D-pathway; other site 318586008507 Subunit I/VIIc interface [polypeptide binding]; other site 318586008508 Subunit I/IV interface [polypeptide binding]; other site 318586008509 Subunit I/II interface [polypeptide binding]; other site 318586008510 Low-spin heme (heme a) binding site [chemical binding]; other site 318586008511 Subunit I/VIIa interface [polypeptide binding]; other site 318586008512 Subunit I/VIa interface [polypeptide binding]; other site 318586008513 Dimer interface; other site 318586008514 Putative water exit pathway; other site 318586008515 Binuclear center (heme a3/CuB) [ion binding]; other site 318586008516 K-pathway; other site 318586008517 Subunit I/Vb interface [polypeptide binding]; other site 318586008518 Putative proton exit pathway; other site 318586008519 Subunit I/VIb interface; other site 318586008520 Subunit I/VIc interface [polypeptide binding]; other site 318586008521 Electron transfer pathway; other site 318586008522 Subunit I/VIIIb interface [polypeptide binding]; other site 318586008523 Subunit I/VIIb interface [polypeptide binding]; other site 318586008524 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586008525 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 318586008526 N-terminal plug; other site 318586008527 ligand-binding site [chemical binding]; other site 318586008528 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 318586008529 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 318586008530 ABC-ATPase subunit interface; other site 318586008531 dimer interface [polypeptide binding]; other site 318586008532 putative PBP binding regions; other site 318586008533 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586008534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008535 Walker A/P-loop; other site 318586008536 ATP binding site [chemical binding]; other site 318586008537 Q-loop/lid; other site 318586008538 ABC transporter signature motif; other site 318586008539 Walker B; other site 318586008540 D-loop; other site 318586008541 H-loop/switch region; other site 318586008542 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 318586008543 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 318586008544 putative ligand binding residues [chemical binding]; other site 318586008545 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 318586008546 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 318586008547 Sulfate transporter family; Region: Sulfate_transp; cl15842 318586008548 Sulfate transporter family; Region: Sulfate_transp; cl15842 318586008549 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 318586008550 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 318586008551 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 318586008552 putative ion selectivity filter; other site 318586008553 putative pore gating glutamate residue; other site 318586008554 putative H+/Cl- coupling transport residue; other site 318586008555 BCCT family transporter; Region: BCCT; cl00569 318586008556 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 318586008557 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318586008558 Integrase core domain; Region: rve; cl01316 318586008559 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 318586008560 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 318586008561 putative substrate translocation pore; other site 318586008562 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 318586008563 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586008564 putative substrate translocation pore; other site 318586008565 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 318586008566 NAD(P) binding site [chemical binding]; other site 318586008567 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318586008568 Helix-turn-helix domains; Region: HTH; cl00088 318586008569 hypothetical protein; Provisional; Region: PRK06184 318586008570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586008571 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586008572 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 318586008573 TPP-binding site [chemical binding]; other site 318586008574 tetramer interface [polypeptide binding]; other site 318586008575 heterodimer interface [polypeptide binding]; other site 318586008576 phosphorylation loop region [posttranslational modification] 318586008577 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 318586008578 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 318586008579 alpha subunit interface [polypeptide binding]; other site 318586008580 TPP binding site [chemical binding]; other site 318586008581 heterodimer interface [polypeptide binding]; other site 318586008582 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318586008583 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586008584 Helix-turn-helix domains; Region: HTH; cl00088 318586008585 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586008586 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 318586008587 homotrimer interaction site [polypeptide binding]; other site 318586008588 putative active site [active] 318586008589 aminotransferase; Provisional; Region: PRK06105 318586008590 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 318586008591 inhibitor-cofactor binding pocket; inhibition site 318586008592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586008593 catalytic residue [active] 318586008594 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 318586008595 Amidase; Region: Amidase; cl11426 318586008596 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 318586008597 ligand binding site [chemical binding]; other site 318586008598 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586008599 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 318586008600 Walker A/P-loop; other site 318586008601 ATP binding site [chemical binding]; other site 318586008602 Q-loop/lid; other site 318586008603 ABC transporter signature motif; other site 318586008604 Walker B; other site 318586008605 D-loop; other site 318586008606 H-loop/switch region; other site 318586008607 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586008608 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 318586008609 Walker A/P-loop; other site 318586008610 ATP binding site [chemical binding]; other site 318586008611 Q-loop/lid; other site 318586008612 ABC transporter signature motif; other site 318586008613 Walker B; other site 318586008614 D-loop; other site 318586008615 H-loop/switch region; other site 318586008616 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 318586008617 TM-ABC transporter signature motif; other site 318586008618 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 318586008619 TM-ABC transporter signature motif; other site 318586008620 indole acetimide hydrolase; Validated; Region: PRK07488 318586008621 Amidase; Region: Amidase; cl11426 318586008622 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586008623 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 318586008624 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 318586008625 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 318586008626 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 318586008627 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 318586008628 EamA-like transporter family; Region: EamA; cl01037 318586008629 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 318586008630 aconitate hydratase; Provisional; Region: acnA; PRK12881 318586008631 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 318586008632 substrate binding site [chemical binding]; other site 318586008633 ligand binding site [chemical binding]; other site 318586008634 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 318586008635 substrate binding site [chemical binding]; other site 318586008636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586008637 DNA-binding site [nucleotide binding]; DNA binding site 318586008638 Helix-turn-helix domains; Region: HTH; cl00088 318586008639 DNA-binding site [nucleotide binding]; DNA binding site 318586008640 FCD domain; Region: FCD; cl11656 318586008641 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 318586008642 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 318586008643 NMT1-like family; Region: NMT1_2; cl15260 318586008644 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 318586008645 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 318586008646 Putative phage tail protein; Region: Phage-tail_3; pfam13550 318586008647 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 318586008648 Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal...; Region: TNF; cl00147 318586008649 Transposase IS200 like; Region: Y1_Tnp; cl00848 318586008650 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 318586008651 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 318586008652 adhesin; Provisional; Region: PRK09752 318586008653 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 318586008654 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 318586008655 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 318586008656 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 318586008657 substrate binding pocket [chemical binding]; other site 318586008658 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 318586008659 membrane-bound complex binding site; other site 318586008660 hinge residues; other site 318586008661 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586008662 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586008663 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586008664 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 318586008665 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 318586008666 active site 318586008667 Int/Topo IB signature motif; other site 318586008668 DNA binding site [nucleotide binding] 318586008669 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 318586008670 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 318586008671 putative active site [active] 318586008672 heme pocket [chemical binding]; other site 318586008673 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 318586008674 dimer interface [polypeptide binding]; other site 318586008675 phosphorylation site [posttranslational modification] 318586008676 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 318586008677 ATP binding site [chemical binding]; other site 318586008678 Mg2+ binding site [ion binding]; other site 318586008679 G-X-G motif; other site 318586008680 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 318586008681 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 318586008682 Acylphosphatase; Region: Acylphosphatase; cl00551 318586008683 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 318586008684 HypF finger; Region: zf-HYPF; pfam07503 318586008685 HypF finger; Region: zf-HYPF; pfam07503 318586008686 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318586008687 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 318586008688 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 318586008689 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 318586008690 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 318586008691 HupE / UreJ protein; Region: HupE_UreJ; cl01011 318586008692 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 318586008693 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 318586008694 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 318586008695 putative substrate-binding site; other site 318586008696 nickel binding site [ion binding]; other site 318586008697 HupF/HypC family; Region: HupF_HypC; cl00394 318586008698 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 318586008699 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 318586008700 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 318586008701 Rubredoxin; Region: Rubredoxin; pfam00301 318586008702 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 318586008703 iron binding site [ion binding]; other site 318586008704 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 318586008705 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 318586008706 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 318586008707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008708 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318586008709 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 318586008710 active site 318586008711 phosphorylation site [posttranslational modification] 318586008712 intermolecular recognition site; other site 318586008713 dimerization interface [polypeptide binding]; other site 318586008714 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 318586008715 Walker A motif; other site 318586008716 ATP binding site [chemical binding]; other site 318586008717 Walker B motif; other site 318586008718 arginine finger; other site 318586008719 Helix-turn-helix domains; Region: HTH; cl00088 318586008720 HupF/HypC family; Region: HupF_HypC; cl00394 318586008721 Hydrogenase formation hypA family; Region: HypD; cl12072 318586008722 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 318586008723 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 318586008724 dimerization interface [polypeptide binding]; other site 318586008725 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 318586008726 ATP binding site [chemical binding]; other site 318586008727 Domain of unknown function DUF21; Region: DUF21; pfam01595 318586008728 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 318586008729 Domain of unknown function DUF21; Region: DUF21; pfam01595 318586008730 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 318586008731 Transporter associated domain; Region: CorC_HlyC; cl08393 318586008732 Cupin domain; Region: Cupin_2; cl09118 318586008733 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586008734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586008735 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 318586008736 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 318586008737 NADP binding site [chemical binding]; other site 318586008738 active site 318586008739 steroid binding site; other site 318586008740 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 318586008741 active site 318586008742 Predicted transcriptional regulator [Transcription]; Region: COG1959 318586008743 Helix-turn-helix domains; Region: HTH; cl00088 318586008744 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 318586008745 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 318586008746 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 318586008747 active site 318586008748 Int/Topo IB signature motif; other site 318586008749 DNA binding site [nucleotide binding] 318586008750 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 318586008751 catalytic residues [active] 318586008752 catalytic nucleophile [active] 318586008753 Recombinase; Region: Recombinase; pfam07508 318586008754 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 318586008755 Ceramidase; Region: Ceramidase; pfam05875 318586008756 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 318586008757 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 318586008758 motif II; other site 318586008759 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 318586008760 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318586008761 active site 318586008762 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 318586008763 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 318586008764 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 318586008765 Chromate transporter; Region: Chromate_transp; pfam02417 318586008766 Chromate transporter; Region: Chromate_transp; pfam02417 318586008767 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 318586008768 active site residue [active] 318586008769 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 318586008770 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586008771 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 318586008772 Membrane transport protein; Region: Mem_trans; cl09117 318586008773 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 318586008774 ArsC family; Region: ArsC; pfam03960 318586008775 catalytic residues [active] 318586008776 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 318586008777 dimerization interface [polypeptide binding]; other site 318586008778 putative DNA binding site [nucleotide binding]; other site 318586008779 putative Zn2+ binding site [ion binding]; other site 318586008780 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 318586008781 DNA-binding site [nucleotide binding]; DNA binding site 318586008782 RNA-binding motif; other site 318586008783 Protein of unknown function (DUF982); Region: DUF982; pfam06169 318586008784 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 318586008785 DNA-binding site [nucleotide binding]; DNA binding site 318586008786 RNA-binding motif; other site 318586008787 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 318586008788 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 318586008789 putative dimer interface [polypeptide binding]; other site 318586008790 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 318586008791 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 318586008792 putative dimer interface [polypeptide binding]; other site 318586008793 SPW repeat; Region: SPW; pfam03779 318586008794 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 318586008795 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 318586008796 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 318586008797 protein binding site [polypeptide binding]; other site 318586008798 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 318586008799 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 318586008800 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586008801 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 318586008802 Cupin domain; Region: Cupin_2; cl09118 318586008803 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; cl01051 318586008804 phosphoethanolamine N-methyltransferase; Region: PLN02336 318586008805 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 318586008806 S-adenosylmethionine binding site [chemical binding]; other site 318586008807 H-NS histone family; Region: Histone_HNS; pfam00816 318586008808 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 318586008809 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 318586008810 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318586008811 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586008812 Coenzyme A binding pocket [chemical binding]; other site 318586008813 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318586008814 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318586008815 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318586008816 Helix-turn-helix domains; Region: HTH; cl00088 318586008817 putative transposase OrfB; Reviewed; Region: PHA02517 318586008818 HTH-like domain; Region: HTH_21; pfam13276 318586008819 Integrase core domain; Region: rve; cl01316 318586008820 Integrase core domain; Region: rve_3; cl15866 318586008821 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 318586008822 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318586008823 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318586008824 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 318586008825 dimer interface [polypeptide binding]; other site 318586008826 ssDNA binding site [nucleotide binding]; other site 318586008827 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318586008828 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 318586008829 non-specific DNA binding site [nucleotide binding]; other site 318586008830 salt bridge; other site 318586008831 sequence-specific DNA binding site [nucleotide binding]; other site 318586008832 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 318586008833 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 318586008834 EamA-like transporter family; Region: EamA; cl01037 318586008835 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 318586008836 putative active site [active] 318586008837 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 318586008838 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 318586008839 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318586008840 Replication initiator protein A; Region: RPA; cl02339 318586008841 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 318586008842 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 318586008843 cofactor binding site; other site 318586008844 DNA binding site [nucleotide binding] 318586008845 substrate interaction site [chemical binding]; other site 318586008846 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 318586008847 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 318586008848 Protein of unknown function (DUF736); Region: DUF736; cl02303 318586008849 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 318586008850 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586008851 catalytic residue [active] 318586008852 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 318586008853 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 318586008854 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 318586008855 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 318586008856 Walker A motif; other site 318586008857 ATP binding site [chemical binding]; other site 318586008858 Walker B motif; other site 318586008859 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008860 AAA domain; Region: AAA_28; pfam13521 318586008861 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 318586008862 oligomeric interface; other site 318586008863 putative active site [active] 318586008864 homodimer interface [polypeptide binding]; other site 318586008865 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 318586008866 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 318586008867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008868 Walker A motif; other site 318586008869 ATP binding site [chemical binding]; other site 318586008870 Walker B motif; other site 318586008871 TrbC/VIRB2 family; Region: TrbC; cl01583 318586008872 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 318586008873 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 318586008874 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 318586008875 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008876 Walker A/P-loop; other site 318586008877 ATP binding site [chemical binding]; other site 318586008878 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586008879 Walker B; other site 318586008880 D-loop; other site 318586008881 H-loop/switch region; other site 318586008882 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 318586008883 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 318586008884 conjugal transfer protein TrbL; Provisional; Region: PRK13875 318586008885 VirB8 protein; Region: VirB8; cl01500 318586008886 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 318586008887 VirB7 interaction site; other site 318586008888 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 318586008889 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 318586008890 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 318586008891 Helix-turn-helix domains; Region: HTH; cl00088 318586008892 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 318586008893 dimerization interface [polypeptide binding]; other site 318586008894 substrate binding pocket [chemical binding]; other site 318586008895 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586008896 DNA-binding site [nucleotide binding]; DNA binding site 318586008897 FCD domain; Region: FCD; cl11656 318586008898 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586008899 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586008900 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586008901 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586008902 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 318586008903 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 318586008904 active site 318586008905 NAD binding site [chemical binding]; other site 318586008906 metal binding site [ion binding]; metal-binding site 318586008907 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 318586008908 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586008909 NAD binding site [chemical binding]; other site 318586008910 catalytic residues [active] 318586008911 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 318586008912 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 318586008913 putative NAD(P) binding site [chemical binding]; other site 318586008914 putative substrate binding site [chemical binding]; other site 318586008915 catalytic Zn binding site [ion binding]; other site 318586008916 structural Zn binding site [ion binding]; other site 318586008917 dimer interface [polypeptide binding]; other site 318586008918 enoyl-CoA hydratase; Provisional; Region: PRK09245 318586008919 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 318586008920 substrate binding site [chemical binding]; other site 318586008921 oxyanion hole (OAH) forming residues; other site 318586008922 trimer interface [polypeptide binding]; other site 318586008923 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586008924 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 318586008925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586008926 Cupin domain; Region: Cupin_2; cl09118 318586008927 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586008928 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586008929 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586008930 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 318586008931 CoenzymeA binding site [chemical binding]; other site 318586008932 subunit interaction site [polypeptide binding]; other site 318586008933 PHB binding site; other site 318586008934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 318586008935 NMT1-like family; Region: NMT1_2; cl15260 318586008936 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 318586008937 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 318586008938 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318586008939 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318586008940 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586008941 active site 318586008942 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318586008943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586008944 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586008945 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586008946 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 318586008947 substrate binding site [chemical binding]; other site 318586008948 oxyanion hole (OAH) forming residues; other site 318586008949 trimer interface [polypeptide binding]; other site 318586008950 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 318586008951 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 318586008952 dimer interface [polypeptide binding]; other site 318586008953 active site 318586008954 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586008955 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586008956 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586008957 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586008958 NAD(P) binding site [chemical binding]; other site 318586008959 catalytic residues [active] 318586008960 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 318586008961 active site 318586008962 catalytic site [active] 318586008963 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 318586008964 active site 2 [active] 318586008965 active site 1 [active] 318586008966 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 318586008967 AMP-binding enzyme; Region: AMP-binding; cl15778 318586008968 AMP-binding enzyme; Region: AMP-binding; cl15778 318586008969 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586008970 Helix-turn-helix domains; Region: HTH; cl00088 318586008971 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 318586008972 dimerization interface [polypeptide binding]; other site 318586008973 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 318586008974 dimer interface [polypeptide binding]; other site 318586008975 phosphorylation site [posttranslational modification] 318586008976 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 318586008977 ATP binding site [chemical binding]; other site 318586008978 Mg2+ binding site [ion binding]; other site 318586008979 G-X-G motif; other site 318586008980 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318586008981 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318586008982 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586008983 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318586008984 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 318586008985 NAD(P) binding site [chemical binding]; other site 318586008986 putative active site [active] 318586008987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586008988 Helix-turn-helix domains; Region: HTH; cl00088 318586008989 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 318586008990 putative effector binding pocket; other site 318586008991 putative dimerization interface [polypeptide binding]; other site 318586008992 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 318586008993 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 318586008994 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 318586008995 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586008996 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 318586008997 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 318586008998 active site 318586008999 catalytic tetrad [active] 318586009000 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 318586009001 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 318586009002 active site 318586009003 catalytic tetrad [active] 318586009004 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 318586009005 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 318586009006 active site 318586009007 catalytic tetrad [active] 318586009008 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 318586009009 DDE superfamily endonuclease; Region: DDE_5; cl02413 318586009010 DDE superfamily endonuclease; Region: DDE_5; cl02413 318586009011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 318586009012 Helix-turn-helix domains; Region: HTH; cl00088 318586009013 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586009014 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 318586009015 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 318586009016 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586009017 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318586009018 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318586009019 DNA binding residues [nucleotide binding] 318586009020 Transmembrane secretion effector; Region: MFS_3; pfam05977 318586009021 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 318586009022 Cupin domain; Region: Cupin_2; cl09118 318586009023 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 318586009024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586009025 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586009026 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586009027 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586009028 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 318586009029 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586009030 NAD binding site [chemical binding]; other site 318586009031 catalytic residues [active] 318586009032 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 318586009033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 318586009034 Transposase; Region: DDE_Tnp_ISL3; pfam01610 318586009035 Transposase; Region: DDE_Tnp_ISL3; pfam01610 318586009036 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586009037 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 318586009038 dimer interface [polypeptide binding]; other site 318586009039 NADP binding site [chemical binding]; other site 318586009040 catalytic residues [active] 318586009041 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 318586009042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 318586009043 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 318586009044 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 318586009045 active site 318586009046 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 318586009047 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 318586009048 Transmembrane secretion effector; Region: MFS_3; pfam05977 318586009049 Helix-turn-helix domains; Region: HTH; cl00088 318586009050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586009051 Helix-turn-helix domains; Region: HTH; cl00088 318586009052 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 318586009053 dimerization interface [polypeptide binding]; other site 318586009054 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 318586009055 NMT1/THI5 like; Region: NMT1; pfam09084 318586009056 NMT1-like family; Region: NMT1_2; cl15260 318586009057 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 318586009058 thiamine pyrophosphate protein; Validated; Region: PRK08199 318586009059 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586009060 PYR/PP interface [polypeptide binding]; other site 318586009061 dimer interface [polypeptide binding]; other site 318586009062 TPP binding site [chemical binding]; other site 318586009063 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318586009064 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; cd00568 318586009065 TPP-binding site [chemical binding]; other site 318586009066 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 318586009067 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 318586009068 active site 318586009069 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 318586009070 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 318586009071 Integrase core domain; Region: rve; cl01316 318586009072 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 318586009073 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 318586009074 Transposase; Region: DDE_Tnp_ISL3; pfam01610 318586009075 Transposase; Region: DDE_Tnp_ISL3; pfam01610 318586009076 sensor protein QseC; Provisional; Region: PRK10337 318586009077 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 318586009078 dimer interface [polypeptide binding]; other site 318586009079 phosphorylation site [posttranslational modification] 318586009080 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 318586009081 ATP binding site [chemical binding]; other site 318586009082 Mg2+ binding site [ion binding]; other site 318586009083 G-X-G motif; other site 318586009084 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 318586009085 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 318586009086 active site 318586009087 phosphorylation site [posttranslational modification] 318586009088 intermolecular recognition site; other site 318586009089 dimerization interface [polypeptide binding]; other site 318586009090 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 318586009091 DNA binding site [nucleotide binding] 318586009092 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 318586009093 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 318586009094 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 318586009095 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 318586009096 FlgD Ig-like domain; Region: FlgD_ig; cl15790 318586009097 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318586009098 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318586009099 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586009100 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 318586009101 FAD binding pocket [chemical binding]; other site 318586009102 FAD binding motif [chemical binding]; other site 318586009103 catalytic residues [active] 318586009104 NAD binding pocket [chemical binding]; other site 318586009105 phosphate binding motif [ion binding]; other site 318586009106 beta-alpha-beta structure motif; other site 318586009107 ApbE family; Region: ApbE; cl00643 318586009108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586009109 Helix-turn-helix domains; Region: HTH; cl00088 318586009110 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 318586009111 dimerization interface [polypeptide binding]; other site 318586009112 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 318586009113 metal-binding site [ion binding] 318586009114 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 318586009115 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318586009116 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586009117 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 318586009118 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 318586009119 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318586009120 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586009121 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318586009122 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 318586009123 Walker A/P-loop; other site 318586009124 ATP binding site [chemical binding]; other site 318586009125 Q-loop/lid; other site 318586009126 ABC transporter signature motif; other site 318586009127 Walker B; other site 318586009128 D-loop; other site 318586009129 H-loop/switch region; other site 318586009130 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318586009131 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318586009132 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 318586009133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586009134 Helix-turn-helix domains; Region: HTH; cl00088 318586009135 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 318586009136 Fic family protein [Function unknown]; Region: COG3177 318586009137 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 318586009138 Fic/DOC family; Region: Fic; cl00960 318586009139 Helix-turn-helix domains; Region: HTH; cl00088 318586009140 Integrase core domain; Region: rve; cl01316 318586009141 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 318586009142 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 318586009143 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586009144 Integrase core domain; Region: rve; cl01316 318586009145 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586009146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318586009147 Helix-turn-helix domains; Region: HTH; cl00088 318586009148 Integrase core domain; Region: rve; cl01316 318586009149 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 318586009150 Response regulator receiver domain; Region: Response_reg; pfam00072 318586009151 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 318586009152 active site 318586009153 phosphorylation site [posttranslational modification] 318586009154 intermolecular recognition site; other site 318586009155 dimerization interface [polypeptide binding]; other site 318586009156 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 318586009157 DNA binding residues [nucleotide binding] 318586009158 dimerization interface [polypeptide binding]; other site 318586009159 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 318586009160 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 318586009161 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 318586009162 ATP binding site [chemical binding]; other site 318586009163 Mg2+ binding site [ion binding]; other site 318586009164 G-X-G motif; other site 318586009165 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 318586009166 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 318586009167 metal ion-dependent adhesion site (MIDAS); other site 318586009168 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 318586009169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 318586009170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586009171 ABC transporter signature motif; other site 318586009172 Walker B; other site 318586009173 D-loop; other site 318586009174 H-loop/switch region; other site 318586009175 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 318586009176 catalytic residues [active] 318586009177 catalytic nucleophile [active] 318586009178 Recombinase; Region: Recombinase; pfam07508 318586009179 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 318586009180 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 318586009181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586009182 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586009183 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 318586009184 Domain of unknown function (DUF955); Region: DUF955; cl01076 318586009185 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586009186 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586009187 Bacterial SH3 domain; Region: SH3_3; cl02551 318586009188 Chromate transporter; Region: Chromate_transp; pfam02417 318586009189 Chromate transporter; Region: Chromate_transp; pfam02417 318586009190 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 318586009191 active site residue [active] 318586009192 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 318586009193 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586009194 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 318586009195 Membrane transport protein; Region: Mem_trans; cl09117 318586009196 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318586009197 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 318586009198 active site 318586009199 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 318586009200 ArsC family; Region: ArsC; pfam03960 318586009201 catalytic residues [active] 318586009202 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 318586009203 dimerization interface [polypeptide binding]; other site 318586009204 putative DNA binding site [nucleotide binding]; other site 318586009205 putative Zn2+ binding site [ion binding]; other site 318586009206 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 318586009207 Sulfate transporter family; Region: Sulfate_transp; cl15842 318586009208 Sulfate transporter family; Region: Sulfate_transp; cl15842 318586009209 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 318586009210 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 318586009211 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_14; cd08355 318586009212 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586009213 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 318586009214 S-adenosylmethionine binding site [chemical binding]; other site 318586009215 H-NS histone family; Region: Histone_HNS; pfam00816 318586009216 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 318586009217 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 318586009218 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 318586009219 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 318586009220 S-adenosylmethionine binding site [chemical binding]; other site 318586009221 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 318586009222 putative metal binding site [ion binding]; other site 318586009223 putative homodimer interface [polypeptide binding]; other site 318586009224 putative homotetramer interface [polypeptide binding]; other site 318586009225 putative homodimer-homodimer interface [polypeptide binding]; other site 318586009226 putative allosteric switch controlling residues; other site 318586009227 Cation efflux family; Region: Cation_efflux; cl00316 318586009228 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 318586009229 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318586009230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586009231 Coenzyme A binding pocket [chemical binding]; other site 318586009232 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 318586009233 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318586009234 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586009235 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586009236 Coenzyme A binding pocket [chemical binding]; other site 318586009237 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 318586009238 dimer interface [polypeptide binding]; other site 318586009239 ssDNA binding site [nucleotide binding]; other site 318586009240 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318586009241 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 318586009242 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 318586009243 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 318586009244 non-specific DNA binding site [nucleotide binding]; other site 318586009245 sequence-specific DNA binding site [nucleotide binding]; other site 318586009246 salt bridge; other site 318586009247 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318586009248 Replication initiator protein A; Region: RPA; cl02339 318586009249 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 318586009250 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 318586009251 cofactor binding site; other site 318586009252 DNA binding site [nucleotide binding] 318586009253 substrate interaction site [chemical binding]; other site 318586009254 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 318586009255 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 318586009256 Protein of unknown function (DUF736); Region: DUF736; cl02303 318586009257 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 318586009258 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586009259 catalytic residue [active] 318586009260 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 318586009261 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 318586009262 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 318586009263 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 318586009264 oligomeric interface; other site 318586009265 putative active site [active] 318586009266 homodimer interface [polypeptide binding]; other site 318586009267 Helix-turn-helix domain; Region: HTH_18; pfam12833 318586009268 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 318586009269 intersubunit interface [polypeptide binding]; other site 318586009270 active site 318586009271 Zn2+ binding site [ion binding]; other site 318586009272 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 318586009273 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586009274 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586009275 Putative cyclase; Region: Cyclase; cl00814 318586009276 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586009277 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586009278 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 318586009279 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 318586009280 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586009281 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586009282 DNA-binding site [nucleotide binding]; DNA binding site 318586009283 FCD domain; Region: FCD; cl11656 318586009284 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318586009285 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 318586009286 Putative transposase; Region: Y2_Tnp; pfam04986 318586009287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586009288 Helix-turn-helix domains; Region: HTH; cl00088 318586009289 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 318586009290 dimerization interface [polypeptide binding]; other site 318586009291 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 318586009292 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 318586009293 dimer interface [polypeptide binding]; other site 318586009294 putative functional site; other site 318586009295 putative MPT binding site; other site 318586009296 DDE superfamily endonuclease; Region: DDE_4; cl15789 318586009297 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 318586009298 dimer interface [polypeptide binding]; other site 318586009299 phosphorylation site [posttranslational modification] 318586009300 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 318586009301 ATP binding site [chemical binding]; other site 318586009302 Mg2+ binding site [ion binding]; other site 318586009303 G-X-G motif; other site 318586009304 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318586009305 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 318586009306 active site 318586009307 phosphorylation site [posttranslational modification] 318586009308 intermolecular recognition site; other site 318586009309 dimerization interface [polypeptide binding]; other site 318586009310 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 318586009311 DNA binding site [nucleotide binding] 318586009312 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 318586009313 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 318586009314 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 318586009315 dimer interface [polypeptide binding]; other site 318586009316 conserved gate region; other site 318586009317 putative PBP binding loops; other site 318586009318 ABC-ATPase subunit interface; other site 318586009319 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 318586009320 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 318586009321 dimer interface [polypeptide binding]; other site 318586009322 conserved gate region; other site 318586009323 putative PBP binding loops; other site 318586009324 ABC-ATPase subunit interface; other site 318586009325 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 318586009326 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 318586009327 Walker A/P-loop; other site 318586009328 ATP binding site [chemical binding]; other site 318586009329 Q-loop/lid; other site 318586009330 ABC transporter signature motif; other site 318586009331 Walker B; other site 318586009332 D-loop; other site 318586009333 H-loop/switch region; other site 318586009334 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318586009335 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318586009336 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 318586009337 active site 318586009338 Creatinine amidohydrolase; Region: Creatininase; cl00618 318586009339 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 318586009340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586009341 Helix-turn-helix domains; Region: HTH; cl00088 318586009342 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 318586009343 putative dimerization interface [polypeptide binding]; other site 318586009344 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 318586009345 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 318586009346 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 318586009347 putative NAD(P) binding site [chemical binding]; other site 318586009348 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 318586009349 putative active site [active] 318586009350 aspartate aminotransferase; Provisional; Region: PRK05764 318586009351 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 318586009352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586009353 homodimer interface [polypeptide binding]; other site 318586009354 catalytic residue [active] 318586009355 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 318586009356 homotrimer interaction site [polypeptide binding]; other site 318586009357 putative active site [active] 318586009358 aspartate aminotransferase; Provisional; Region: PRK06207 318586009359 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 318586009360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586009361 homodimer interface [polypeptide binding]; other site 318586009362 catalytic residue [active] 318586009363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586009364 Helix-turn-helix domains; Region: HTH; cl00088 318586009365 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 318586009366 putative dimerization interface [polypeptide binding]; other site 318586009367 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 318586009368 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 318586009369 inhibitor site; inhibition site 318586009370 active site 318586009371 dimer interface [polypeptide binding]; other site 318586009372 catalytic residue [active] 318586009373 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 318586009374 homodimer interface [polypeptide binding]; other site 318586009375 substrate-cofactor binding pocket; other site 318586009376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586009377 catalytic residue [active] 318586009378 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 318586009379 putative active site [active] 318586009380 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586009381 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586009382 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586009383 DctM-like transporters; Region: DctM; pfam06808 318586009384 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586009385 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 318586009386 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 318586009387 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 318586009388 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586009389 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586009390 DNA-binding site [nucleotide binding]; DNA binding site 318586009391 FCD domain; Region: FCD; cl11656 318586009392 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 318586009393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586009394 allantoate amidohydrolase; Reviewed; Region: PRK12890 318586009395 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 318586009396 active site 318586009397 metal binding site [ion binding]; metal-binding site 318586009398 dimer interface [polypeptide binding]; other site 318586009399 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586009400 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586009401 DNA-binding site [nucleotide binding]; DNA binding site 318586009402 FCD domain; Region: FCD; cl11656 318586009403 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318586009404 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318586009405 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 318586009406 active site 318586009407 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586009408 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 318586009409 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 318586009410 dimer interface [polypeptide binding]; other site 318586009411 phosphorylation site [posttranslational modification] 318586009412 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 318586009413 ATP binding site [chemical binding]; other site 318586009414 Mg2+ binding site [ion binding]; other site 318586009415 G-X-G motif; other site 318586009416 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318586009417 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 318586009418 active site 318586009419 phosphorylation site [posttranslational modification] 318586009420 intermolecular recognition site; other site 318586009421 dimerization interface [polypeptide binding]; other site 318586009422 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 318586009423 DNA binding site [nucleotide binding] 318586009424 transcription termination factor Rho; Provisional; Region: PRK12678 318586009425 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 318586009426 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 318586009427 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 318586009428 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 318586009429 Walker A/P-loop; other site 318586009430 ATP binding site [chemical binding]; other site 318586009431 Q-loop/lid; other site 318586009432 ABC transporter signature motif; other site 318586009433 Walker B; other site 318586009434 D-loop; other site 318586009435 H-loop/switch region; other site 318586009436 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318586009437 FtsX-like permease family; Region: FtsX; cl15850 318586009438 macrolide transporter subunit MacA; Provisional; Region: PRK11578 318586009439 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 318586009440 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 318586009441 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318586009442 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 318586009443 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 318586009444 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 318586009445 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 318586009446 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586009447 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 318586009448 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318586009449 Helix-turn-helix domains; Region: HTH; cl00088 318586009450 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 318586009451 dimerization interface [polypeptide binding]; other site 318586009452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586009453 Helix-turn-helix domains; Region: HTH; cl00088 318586009454 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 318586009455 putative substrate binding pocket [chemical binding]; other site 318586009456 dimerization interface [polypeptide binding]; other site 318586009457 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 318586009458 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 318586009459 homotrimer interaction site [polypeptide binding]; other site 318586009460 putative active site [active] 318586009461 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 318586009462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586009463 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 318586009464 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 318586009465 metal binding site [ion binding]; metal-binding site 318586009466 putative dimer interface [polypeptide binding]; other site 318586009467 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586009468 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 318586009469 Walker A/P-loop; other site 318586009470 ATP binding site [chemical binding]; other site 318586009471 Q-loop/lid; other site 318586009472 ABC transporter signature motif; other site 318586009473 Walker B; other site 318586009474 D-loop; other site 318586009475 H-loop/switch region; other site 318586009476 TOBE domain; Region: TOBE_2; cl01440 318586009477 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318586009478 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 318586009479 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 318586009480 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 318586009481 dimer interface [polypeptide binding]; other site 318586009482 conserved gate region; other site 318586009483 putative PBP binding loops; other site 318586009484 ABC-ATPase subunit interface; other site 318586009485 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 318586009486 dimer interface [polypeptide binding]; other site 318586009487 conserved gate region; other site 318586009488 putative PBP binding loops; other site 318586009489 ABC-ATPase subunit interface; other site 318586009490 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 318586009491 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 318586009492 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586009493 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 318586009494 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 318586009495 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 318586009496 [2Fe-2S] cluster binding site [ion binding]; other site 318586009497 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_1; cd08885 318586009498 putative alpha subunit interface [polypeptide binding]; other site 318586009499 putative active site [active] 318586009500 putative substrate binding site [chemical binding]; other site 318586009501 Fe binding site [ion binding]; other site 318586009502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586009503 Helix-turn-helix domains; Region: HTH; cl00088 318586009504 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 318586009505 putative substrate binding pocket [chemical binding]; other site 318586009506 dimerization interface [polypeptide binding]; other site 318586009507 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 318586009508 Proline racemase; Region: Pro_racemase; pfam05544 318586009509 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 318586009510 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 318586009511 ligand binding site [chemical binding]; other site 318586009512 flexible hinge region; other site 318586009513 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 318586009514 putative switch regulator; other site 318586009515 non-specific DNA interactions [nucleotide binding]; other site 318586009516 DNA binding site [nucleotide binding] 318586009517 sequence specific DNA binding site [nucleotide binding]; other site 318586009518 putative cAMP binding site [chemical binding]; other site 318586009519 TfuA-like protein; Region: TfuA; pfam07812 318586009520 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 318586009521 YcaO-like family; Region: YcaO; pfam02624 318586009522 cyclase homology domain; Region: CHD; cd07302 318586009523 nucleotidyl binding site; other site 318586009524 metal binding site [ion binding]; metal-binding site 318586009525 dimer interface [polypeptide binding]; other site 318586009526 TolB amino-terminal domain; Region: TolB_N; cl00639 318586009527 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 318586009528 TPR motif; other site 318586009529 binding surface 318586009530 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 318586009531 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 318586009532 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 318586009533 potential catalytic triad [active] 318586009534 conserved cys residue [active] 318586009535 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 318586009536 putative active site [active] 318586009537 putative FMN binding site [chemical binding]; other site 318586009538 putative substrate binding site [chemical binding]; other site 318586009539 putative catalytic residue [active] 318586009540 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318586009541 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318586009542 DNA binding residues [nucleotide binding] 318586009543 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586009544 Helix-turn-helix domains; Region: HTH; cl00088 318586009545 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586009546 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586009547 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586009548 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586009549 DctM-like transporters; Region: DctM; pfam06808 318586009550 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586009551 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 318586009552 Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the...; Region: DHOD_DHPD_FMN; cd02810 318586009553 active site 318586009554 FMN binding site [chemical binding]; other site 318586009555 substrate binding site [chemical binding]; other site 318586009556 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 318586009557 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 318586009558 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 318586009559 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586009560 Helix-turn-helix domains; Region: HTH; cl00088 318586009561 Helix-turn-helix domains; Region: HTH; cl00088 318586009562 phenol 2-monooxygenase; Provisional; Region: PRK08294 318586009563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586009564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586009565 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 318586009566 dimer interface [polypeptide binding]; other site 318586009567 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 318586009568 Helix-turn-helix domains; Region: HTH; cl00088 318586009569 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 318586009570 dimerization interface [polypeptide binding]; other site 318586009571 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 318586009572 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 318586009573 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586009574 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 318586009575 heterodimer interface [polypeptide binding]; other site 318586009576 multimer interface [polypeptide binding]; other site 318586009577 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 318586009578 active site 318586009579 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 318586009580 heterodimer interface [polypeptide binding]; other site 318586009581 active site 318586009582 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 318586009583 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 318586009584 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 318586009585 tetramer interface [polypeptide binding]; other site 318586009586 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586009587 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586009588 DctM-like transporters; Region: DctM; pfam06808 318586009589 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586009590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586009591 Helix-turn-helix domains; Region: HTH; cl00088 318586009592 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 318586009593 putative effector binding pocket; other site 318586009594 dimerization interface [polypeptide binding]; other site 318586009595 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 318586009596 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586009597 Zn binding site [ion binding]; other site 318586009598 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 318586009599 Zn binding site [ion binding]; other site 318586009600 Predicted esterase [General function prediction only]; Region: COG0400 318586009601 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 318586009602 Isochorismatase family; Region: Isochorismatase; pfam00857 318586009603 catalytic triad [active] 318586009604 dimer interface [polypeptide binding]; other site 318586009605 conserved cis-peptide bond; other site 318586009606 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586009607 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 318586009608 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 318586009609 active site 318586009610 Transmembrane secretion effector; Region: MFS_3; pfam05977 318586009611 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 318586009612 putative substrate translocation pore; other site 318586009613 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318586009614 DoxX; Region: DoxX; cl00976 318586009615 Pirin-related protein [General function prediction only]; Region: COG1741 318586009616 Cupin domain; Region: Cupin_2; cl09118 318586009617 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 318586009618 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 318586009619 transcriptional regulator SlyA; Provisional; Region: PRK03573 318586009620 Helix-turn-helix domains; Region: HTH; cl00088 318586009621 Helix-turn-helix domains; Region: HTH; cl00088 318586009622 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 318586009623 dimerization interface [polypeptide binding]; other site 318586009624 allantoinase; Provisional; Region: PRK06189 318586009625 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 318586009626 active site 318586009627 allantoate amidohydrolase; Reviewed; Region: PRK12893 318586009628 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 318586009629 active site 318586009630 metal binding site [ion binding]; metal-binding site 318586009631 dimer interface [polypeptide binding]; other site 318586009632 Protein of unknown function (DUF917); Region: DUF917; pfam06032 318586009633 Urocanase; Region: Urocanase; pfam01175 318586009634 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 318586009635 metabolite-proton symporter; Region: 2A0106; TIGR00883 318586009636 putative substrate translocation pore; other site 318586009637 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 318586009638 active sites [active] 318586009639 tetramer interface [polypeptide binding]; other site 318586009640 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318586009641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586009642 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586009643 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 318586009644 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 318586009645 N-terminal plug; other site 318586009646 ligand-binding site [chemical binding]; other site 318586009647 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 318586009648 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 318586009649 siderophore binding site; other site 318586009650 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 318586009651 ABC-ATPase subunit interface; other site 318586009652 dimer interface [polypeptide binding]; other site 318586009653 putative PBP binding regions; other site 318586009654 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 318586009655 ABC-ATPase subunit interface; other site 318586009656 dimer interface [polypeptide binding]; other site 318586009657 putative PBP binding regions; other site 318586009658 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586009659 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 318586009660 Walker A/P-loop; other site 318586009661 ATP binding site [chemical binding]; other site 318586009662 Q-loop/lid; other site 318586009663 ABC transporter signature motif; other site 318586009664 Walker B; other site 318586009665 D-loop; other site 318586009666 H-loop/switch region; other site 318586009667 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 318586009668 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 318586009669 active site 318586009670 non-prolyl cis peptide bond; other site 318586009671 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586009672 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 318586009673 N-terminal plug; other site 318586009674 ligand-binding site [chemical binding]; other site 318586009675 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586009676 Helix-turn-helix domains; Region: HTH; cl00088 318586009677 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586009678 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586009679 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 318586009680 Walker A/P-loop; other site 318586009681 ATP binding site [chemical binding]; other site 318586009682 Q-loop/lid; other site 318586009683 ABC transporter signature motif; other site 318586009684 Walker B; other site 318586009685 D-loop; other site 318586009686 H-loop/switch region; other site 318586009687 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 318586009688 FAD binding pocket [chemical binding]; other site 318586009689 FAD binding motif [chemical binding]; other site 318586009690 phosphate binding motif [ion binding]; other site 318586009691 NAD binding pocket [chemical binding]; other site 318586009692 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 318586009693 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 318586009694 intersubunit interface [polypeptide binding]; other site 318586009695 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 318586009696 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 318586009697 dimer interface [polypeptide binding]; other site 318586009698 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 318586009699 ABC-ATPase subunit interface; other site 318586009700 putative PBP binding regions; other site 318586009701 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 318586009702 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 318586009703 ABC-ATPase subunit interface; other site 318586009704 dimer interface [polypeptide binding]; other site 318586009705 putative PBP binding regions; other site 318586009706 putative glutathione S-transferase; Provisional; Region: PRK10357 318586009707 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 318586009708 putative C-terminal domain interface [polypeptide binding]; other site 318586009709 putative GSH binding site (G-site) [chemical binding]; other site 318586009710 putative dimer interface [polypeptide binding]; other site 318586009711 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 318586009712 dimer interface [polypeptide binding]; other site 318586009713 N-terminal domain interface [polypeptide binding]; other site 318586009714 putative substrate binding pocket (H-site) [chemical binding]; other site 318586009715 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586009716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586009717 DNA-binding site [nucleotide binding]; DNA binding site 318586009718 FCD domain; Region: FCD; cl11656 318586009719 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586009720 classical (c) SDRs; Region: SDR_c; cd05233 318586009721 NAD(P) binding site [chemical binding]; other site 318586009722 active site 318586009723 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586009724 DctM-like transporters; Region: DctM; pfam06808 318586009725 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586009726 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586009727 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586009728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586009729 NAD(P) binding site [chemical binding]; other site 318586009730 active site 318586009731 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318586009732 classical (c) SDRs; Region: SDR_c; cd05233 318586009733 NAD(P) binding site [chemical binding]; other site 318586009734 active site 318586009735 putative succinate dehydrogenase; Reviewed; Region: PRK12842 318586009736 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 318586009737 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586009738 Helix-turn-helix domains; Region: HTH; cl00088 318586009739 Helix-turn-helix domains; Region: HTH; cl00088 318586009740 Cupin domain; Region: Cupin_2; cl09118 318586009741 fumarylacetoacetase; Region: PLN02856 318586009742 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 318586009743 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586009744 maleylacetoacetate isomerase; Region: maiA; TIGR01262 318586009745 GST_N family, Class Zeta 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_Zeta; cd03042 318586009746 C-terminal domain interface [polypeptide binding]; other site 318586009747 GSH binding site (G-site) [chemical binding]; other site 318586009748 putative dimer interface [polypeptide binding]; other site 318586009749 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318586009750 substrate binding pocket (H-site) [chemical binding]; other site 318586009751 N-terminal domain interface [polypeptide binding]; other site 318586009752 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 318586009753 ligand binding site; other site 318586009754 tetramer interface; other site 318586009755 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 318586009756 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 318586009757 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586009758 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 318586009759 extended (e) SDRs; Region: SDR_e; cd08946 318586009760 NAD(P) binding site [chemical binding]; other site 318586009761 active site 318586009762 substrate binding site [chemical binding]; other site 318586009763 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 318586009764 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 318586009765 pseudaminic acid synthase; Region: PseI; TIGR03586 318586009766 NeuB family; Region: NeuB; cl00496 318586009767 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 318586009768 NeuB binding interface [polypeptide binding]; other site 318586009769 putative substrate binding site [chemical binding]; other site 318586009770 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 318586009771 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 318586009772 inhibitor-cofactor binding pocket; inhibition site 318586009773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586009774 catalytic residue [active] 318586009775 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 318586009776 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 318586009777 NAD(P) binding site [chemical binding]; other site 318586009778 homodimer interface [polypeptide binding]; other site 318586009779 substrate binding site [chemical binding]; other site 318586009780 active site 318586009781 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 318586009782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318586009783 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318586009784 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318586009785 Helix-turn-helix domains; Region: HTH; cl00088 318586009786 osmolarity response regulator; Provisional; Region: ompR; PRK09468 318586009787 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 318586009788 active site 318586009789 phosphorylation site [posttranslational modification] 318586009790 intermolecular recognition site; other site 318586009791 dimerization interface [polypeptide binding]; other site 318586009792 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 318586009793 DNA binding site [nucleotide binding] 318586009794 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 318586009795 active site 318586009796 phosphorylation site [posttranslational modification] 318586009797 intermolecular recognition site; other site 318586009798 dimerization interface [polypeptide binding]; other site 318586009799 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 318586009800 dimer interface [polypeptide binding]; other site 318586009801 phosphorylation site [posttranslational modification] 318586009802 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 318586009803 ATP binding site [chemical binding]; other site 318586009804 Mg2+ binding site [ion binding]; other site 318586009805 G-X-G motif; other site 318586009806 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 318586009807 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318586009808 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 318586009809 dimer interface [polypeptide binding]; other site 318586009810 phosphorylation site [posttranslational modification] 318586009811 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 318586009812 ATP binding site [chemical binding]; other site 318586009813 Mg2+ binding site [ion binding]; other site 318586009814 G-X-G motif; other site 318586009815 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 318586009816 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 318586009817 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 318586009818 short chain dehydrogenase; Provisional; Region: PRK12829 318586009819 classical (c) SDRs; Region: SDR_c; cd05233 318586009820 NAD(P) binding site [chemical binding]; other site 318586009821 active site 318586009822 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586009823 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586009824 DNA-binding site [nucleotide binding]; DNA binding site 318586009825 FCD domain; Region: FCD; cl11656 318586009826 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586009827 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 318586009828 putative ligand binding site [chemical binding]; other site 318586009829 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 318586009830 TM-ABC transporter signature motif; other site 318586009831 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 318586009832 TM-ABC transporter signature motif; other site 318586009833 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586009834 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 318586009835 Walker A/P-loop; other site 318586009836 ATP binding site [chemical binding]; other site 318586009837 Q-loop/lid; other site 318586009838 ABC transporter signature motif; other site 318586009839 Walker B; other site 318586009840 D-loop; other site 318586009841 H-loop/switch region; other site 318586009842 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586009843 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 318586009844 Walker A/P-loop; other site 318586009845 ATP binding site [chemical binding]; other site 318586009846 Q-loop/lid; other site 318586009847 ABC transporter signature motif; other site 318586009848 Walker B; other site 318586009849 D-loop; other site 318586009850 H-loop/switch region; other site 318586009851 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 318586009852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586009853 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586009854 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 318586009855 histidinol dehydrogenase; Region: hisD; TIGR00069 318586009856 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 318586009857 NAD binding site [chemical binding]; other site 318586009858 dimerization interface [polypeptide binding]; other site 318586009859 product binding site; other site 318586009860 substrate binding site [chemical binding]; other site 318586009861 zinc binding site [ion binding]; other site 318586009862 catalytic residues [active] 318586009863 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586009864 classical (c) SDRs; Region: SDR_c; cd05233 318586009865 NAD(P) binding site [chemical binding]; other site 318586009866 active site 318586009867 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318586009868 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 318586009869 DNA binding residues [nucleotide binding] 318586009870 dimerization interface [polypeptide binding]; other site 318586009871 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318586009872 classical (c) SDRs; Region: SDR_c; cd05233 318586009873 NAD(P) binding site [chemical binding]; other site 318586009874 active site 318586009875 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 318586009876 FAD binding domain; Region: FAD_binding_4; pfam01565 318586009877 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 318586009878 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 318586009879 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 318586009880 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 318586009881 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 318586009882 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318586009883 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 318586009884 active site 318586009885 RelB antitoxin; Region: RelB; cl01171 318586009886 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 318586009887 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586009888 Integrase core domain; Region: rve; cl01316 318586009889 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 318586009890 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586009891 tape measure domain; Region: tape_meas_nterm; TIGR02675 318586009892 putative lipoprotein; Provisional; Region: PRK10533 318586009893 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 318586009894 active site 318586009895 catalytic triad [active] 318586009896 oxyanion hole [active] 318586009897 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 318586009898 catalytic residue [active] 318586009899 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 318586009900 Found in ATP-dependent protease La (LON); Region: LON; smart00464 318586009901 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 318586009902 Walker A motif; other site 318586009903 ATP binding site [chemical binding]; other site 318586009904 Walker B motif; other site 318586009905 arginine finger; other site 318586009906 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 318586009907 CsbD-like; Region: CsbD; cl15799 318586009908 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 318586009909 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586009910 active site 318586009911 HIGH motif; other site 318586009912 nucleotide binding site [chemical binding]; other site 318586009913 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 318586009914 active site 318586009915 KMSKS motif; other site 318586009916 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 318586009917 tRNA binding surface [nucleotide binding]; other site 318586009918 anticodon binding site; other site 318586009919 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 318586009920 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 318586009921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586009922 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 318586009923 heme-binding site [chemical binding]; other site 318586009924 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586009925 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 318586009926 Predicted membrane protein [Function unknown]; Region: COG2860 318586009927 UPF0126 domain; Region: UPF0126; pfam03458 318586009928 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 318586009929 RNA/DNA hybrid binding site [nucleotide binding]; other site 318586009930 active site 318586009931 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586009932 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 318586009933 putative C-terminal domain interface [polypeptide binding]; other site 318586009934 putative GSH binding site (G-site) [chemical binding]; other site 318586009935 putative dimer interface [polypeptide binding]; other site 318586009936 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318586009937 N-terminal domain interface [polypeptide binding]; other site 318586009938 LytB protein; Region: LYTB; cl00507 318586009939 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 318586009940 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318586009941 active site 318586009942 Flavin Reductases; Region: FlaRed; cl00801 318586009943 Predicted acetyltransferase [General function prediction only]; Region: COG3153 318586009944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586009945 Coenzyme A binding pocket [chemical binding]; other site 318586009946 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 318586009947 EcsC protein family; Region: EcsC; pfam12787 318586009948 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 318586009949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586009950 Family description; Region: UvrD_C_2; cl15862 318586009951 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586009952 Helix-turn-helix domains; Region: HTH; cl00088 318586009953 AsnC family; Region: AsnC_trans_reg; pfam01037 318586009954 LysE type translocator; Region: LysE; cl00565 318586009955 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 318586009956 substrate binding site [chemical binding]; other site 318586009957 active site 318586009958 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 318586009959 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 318586009960 domain interfaces; other site 318586009961 active site 318586009962 CobD/Cbib protein; Region: CobD_Cbib; cl00561 318586009963 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 318586009964 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 318586009965 isovaleryl-CoA dehydrogenase; Region: PLN02519 318586009966 substrate binding site [chemical binding]; other site 318586009967 FAD binding site [chemical binding]; other site 318586009968 catalytic base [active] 318586009969 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 318586009970 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 318586009971 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 318586009972 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 318586009973 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 318586009974 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 318586009975 putative ADP-ribose binding site [chemical binding]; other site 318586009976 putative active site [active] 318586009977 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 318586009978 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318586009979 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586009980 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 318586009981 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 318586009982 carboxyltransferase (CT) interaction site; other site 318586009983 biotinylation site [posttranslational modification]; other site 318586009984 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318586009985 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 318586009986 putative C-terminal domain interface [polypeptide binding]; other site 318586009987 putative GSH binding site (G-site) [chemical binding]; other site 318586009988 putative dimer interface [polypeptide binding]; other site 318586009989 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318586009990 N-terminal domain interface [polypeptide binding]; other site 318586009991 dimer interface [polypeptide binding]; other site 318586009992 substrate binding pocket (H-site) [chemical binding]; other site 318586009993 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 318586009994 active site 318586009995 catalytic residues [active] 318586009996 metal binding site [ion binding]; metal-binding site 318586009997 enoyl-CoA hydratase; Provisional; Region: PRK07468 318586009998 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 318586009999 substrate binding site [chemical binding]; other site 318586010000 oxyanion hole (OAH) forming residues; other site 318586010001 trimer interface [polypeptide binding]; other site 318586010002 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 318586010003 putative substrate translocation pore; other site 318586010004 Protein of unknown function, DUF599; Region: DUF599; cl01575 318586010005 Protein of unknown function (DUF465); Region: DUF465; cl01070 318586010006 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 318586010007 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 318586010008 putative dimer interface [polypeptide binding]; other site 318586010009 recombination protein RecR; Reviewed; Region: recR; PRK00076 318586010010 RecR protein; Region: RecR; pfam02132 318586010011 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 318586010012 putative active site [active] 318586010013 putative metal-binding site [ion binding]; other site 318586010014 tetramer interface [polypeptide binding]; other site 318586010015 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 318586010016 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 318586010017 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 318586010018 Walker A motif; other site 318586010019 ATP binding site [chemical binding]; other site 318586010020 Walker B motif; other site 318586010021 arginine finger; other site 318586010022 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 318586010023 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 318586010024 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 318586010025 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 318586010026 amphipathic channel; other site 318586010027 Asn-Pro-Ala signature motifs; other site 318586010028 ABC transporter ATPase component; Reviewed; Region: PRK11147 318586010029 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 318586010030 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 318586010031 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 318586010032 DNA-binding site [nucleotide binding]; DNA binding site 318586010033 RNA-binding motif; other site 318586010034 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 318586010035 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 318586010036 ring oligomerisation interface [polypeptide binding]; other site 318586010037 ATP/Mg binding site [chemical binding]; other site 318586010038 stacking interactions; other site 318586010039 hinge regions; other site 318586010040 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 318586010041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 318586010042 TraB family; Region: TraB; cl12050 318586010043 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 318586010044 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 318586010045 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 318586010046 DHHA2 domain; Region: DHHA2; pfam02833 318586010047 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 318586010048 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586010049 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 318586010050 dimer interaction site [polypeptide binding]; other site 318586010051 substrate-binding tunnel; other site 318586010052 active site 318586010053 catalytic site [active] 318586010054 substrate binding site [chemical binding]; other site 318586010055 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 318586010056 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 318586010057 active site 318586010058 Riboflavin kinase; Region: Flavokinase; cl03312 318586010059 Flagellin N-methylase; Region: FliB; cl00497 318586010060 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 318586010061 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 318586010062 tetramer interface [polypeptide binding]; other site 318586010063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586010064 catalytic residue [active] 318586010065 Competence-damaged protein; Region: CinA; cl00666 318586010066 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 318586010067 tetramer interfaces [polypeptide binding]; other site 318586010068 binuclear metal-binding site [ion binding]; other site 318586010069 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 318586010070 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 318586010071 substrate binding site; other site 318586010072 dimer interface; other site 318586010073 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 318586010074 homotrimer interaction site [polypeptide binding]; other site 318586010075 zinc binding site [ion binding]; other site 318586010076 CDP-binding sites; other site 318586010077 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 318586010078 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318586010079 active site 318586010080 dimer interface [polypeptide binding]; other site 318586010081 glutathione reductase; Validated; Region: PRK06116 318586010082 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586010083 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318586010084 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 318586010085 HflK protein; Region: hflK; TIGR01933 318586010086 HflC protein; Region: hflC; TIGR01932 318586010087 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 318586010088 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 318586010089 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 318586010090 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 318586010091 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_26; cd04685 318586010092 nudix motif; other site 318586010093 TIGR02300 family protein; Region: FYDLN_acid 318586010094 Protein of unknown function DUF45; Region: DUF45; cl00636 318586010095 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586010096 Helix-turn-helix domains; Region: HTH; cl00088 318586010097 DNA-binding site [nucleotide binding]; DNA binding site 318586010098 FCD domain; Region: FCD; cl11656 318586010099 homoserine dehydrogenase; Provisional; Region: PRK06349 318586010100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586010101 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 318586010102 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 318586010103 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 318586010104 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586010105 Coenzyme A binding pocket [chemical binding]; other site 318586010106 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 318586010107 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 318586010108 active site 318586010109 substrate binding site [chemical binding]; other site 318586010110 coenzyme B12 binding site [chemical binding]; other site 318586010111 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 318586010112 B12 binding site [chemical binding]; other site 318586010113 cobalt ligand [ion binding]; other site 318586010114 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 318586010115 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 318586010116 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318586010117 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586010118 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 318586010119 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 318586010120 carboxyltransferase (CT) interaction site; other site 318586010121 biotinylation site [posttranslational modification]; other site 318586010122 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 318586010123 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 318586010124 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 318586010125 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 318586010126 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 318586010127 dimer interface [polypeptide binding]; other site 318586010128 active site 318586010129 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318586010130 substrate binding site [chemical binding]; other site 318586010131 catalytic residues [active] 318586010132 Permease; Region: Permease; cl00510 318586010133 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 318586010134 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 318586010135 Walker A/P-loop; other site 318586010136 ATP binding site [chemical binding]; other site 318586010137 Q-loop/lid; other site 318586010138 ABC transporter signature motif; other site 318586010139 Walker B; other site 318586010140 D-loop; other site 318586010141 H-loop/switch region; other site 318586010142 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010143 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 318586010144 FOG: CBS domain [General function prediction only]; Region: COG0517 318586010145 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 318586010146 Transporter associated domain; Region: CorC_HlyC; cl08393 318586010147 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318586010148 Predicted acetyltransferase [General function prediction only]; Region: COG3153 318586010149 GMP synthase; Reviewed; Region: guaA; PRK00074 318586010150 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 318586010151 AMP/PPi binding site [chemical binding]; other site 318586010152 candidate oxyanion hole; other site 318586010153 catalytic triad [active] 318586010154 potential glutamine specificity residues [chemical binding]; other site 318586010155 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 318586010156 ATP Binding subdomain [chemical binding]; other site 318586010157 Ligand Binding sites [chemical binding]; other site 318586010158 Dimerization subdomain; other site 318586010159 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 318586010160 thiamine phosphate binding site [chemical binding]; other site 318586010161 active site 318586010162 pyrophosphate binding site [ion binding]; other site 318586010163 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 318586010164 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 318586010165 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 318586010166 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 318586010167 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 318586010168 active site 318586010169 Zn binding site [ion binding]; other site 318586010170 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 318586010171 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 318586010172 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 318586010173 FeS/SAM binding site; other site 318586010174 TRAM domain; Region: TRAM; cl01282 318586010175 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 318586010176 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318586010177 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 318586010178 dimer interface [polypeptide binding]; other site 318586010179 conserved gate region; other site 318586010180 putative PBP binding loops; other site 318586010181 ABC-ATPase subunit interface; other site 318586010182 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586010183 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 318586010184 dimer interface [polypeptide binding]; other site 318586010185 conserved gate region; other site 318586010186 putative PBP binding loops; other site 318586010187 ABC-ATPase subunit interface; other site 318586010188 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586010189 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 318586010190 substrate binding pocket [chemical binding]; other site 318586010191 membrane-bound complex binding site; other site 318586010192 hinge residues; other site 318586010193 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 318586010194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010195 Walker A/P-loop; other site 318586010196 ATP binding site [chemical binding]; other site 318586010197 Q-loop/lid; other site 318586010198 ABC transporter signature motif; other site 318586010199 Walker B; other site 318586010200 D-loop; other site 318586010201 H-loop/switch region; other site 318586010202 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 318586010203 putative metal binding site [ion binding]; other site 318586010204 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 318586010205 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 318586010206 CTP synthetase; Validated; Region: pyrG; PRK05380 318586010207 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 318586010208 Catalytic site [active] 318586010209 active site 318586010210 UTP binding site [chemical binding]; other site 318586010211 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 318586010212 active site 318586010213 putative oxyanion hole; other site 318586010214 catalytic triad [active] 318586010215 Preprotein translocase SecG subunit; Region: SecG; cl09123 318586010216 cobyric acid synthase; Provisional; Region: PRK00784 318586010217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010219 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 318586010220 catalytic triad [active] 318586010221 classical (c) SDRs; Region: SDR_c; cd05233 318586010222 NAD(P) binding site [chemical binding]; other site 318586010223 active site 318586010224 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 318586010225 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 318586010226 dimer interface [polypeptide binding]; other site 318586010227 Citrate synthase; Region: Citrate_synt; pfam00285 318586010228 active site 318586010229 citrylCoA binding site [chemical binding]; other site 318586010230 NADH binding [chemical binding]; other site 318586010231 cationic pore residues; other site 318586010232 oxalacetate/citrate binding site [chemical binding]; other site 318586010233 coenzyme A binding site [chemical binding]; other site 318586010234 catalytic triad [active] 318586010235 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 318586010236 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318586010237 HIGH motif; other site 318586010238 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318586010239 active site 318586010240 KMSKS motif; other site 318586010241 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 318586010242 Competence protein; Region: Competence; cl00471 318586010243 Heme NO binding; Region: HNOB; cl15268 318586010244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318586010245 metal binding site [ion binding]; metal-binding site 318586010246 active site 318586010247 I-site; other site 318586010248 Autoinducer binding domain; Region: Autoind_bind; pfam03472 318586010249 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 318586010250 DNA binding residues [nucleotide binding] 318586010251 dimerization interface [polypeptide binding]; other site 318586010252 elongation factor Ts; Provisional; Region: tsf; PRK09377 318586010253 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 318586010254 Elongation factor TS; Region: EF_TS; pfam00889 318586010255 Elongation factor TS; Region: EF_TS; pfam00889 318586010256 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 318586010257 rRNA interaction site [nucleotide binding]; other site 318586010258 S8 interaction site; other site 318586010259 putative laminin-1 binding site; other site 318586010260 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 318586010261 active site 318586010262 DNA binding site [nucleotide binding] 318586010263 Int/Topo IB signature motif; other site 318586010264 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 318586010265 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 318586010266 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 318586010267 RecT family; Region: RecT; cl04285 318586010268 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 318586010269 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 318586010270 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 318586010271 Phage terminase large subunit; Region: Terminase_3; cl12054 318586010272 Terminase-like family; Region: Terminase_6; pfam03237 318586010273 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 318586010274 putative protease; Region: PHA00666 318586010275 major capsid protein; Region: PHA00665 318586010276 hypothetical protein; Region: PHA00664 318586010277 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; cl10351 318586010278 hypothetical protein; Region: PHA00662 318586010279 hypothetical protein; Region: PHA00661 318586010280 hypothetical protein; Region: PHA01733 318586010281 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 318586010282 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586010283 catalytic residue [active] 318586010284 virion protein; Provisional; Region: PHA03414 318586010285 structural protein; Region: PHA01972 318586010286 Arc-like DNA binding domain; Region: Arc; pfam03869 318586010287 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 318586010288 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 318586010289 hypothetical protein; Provisional; Region: PHA02515 318586010290 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318586010291 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318586010292 active site 318586010293 metal binding site [ion binding]; metal-binding site 318586010294 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 318586010295 catalytic residue [active] 318586010296 cytidylate kinase; Provisional; Region: cmk; PRK00023 318586010297 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 318586010298 CMP-binding site; other site 318586010299 The sites determining sugar specificity; other site 318586010300 Nitronate monooxygenase; Region: NMO; pfam03060 318586010301 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 318586010302 FMN binding site [chemical binding]; other site 318586010303 substrate binding site [chemical binding]; other site 318586010304 putative catalytic residue [active] 318586010305 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 318586010306 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 318586010307 RNA binding site [nucleotide binding]; other site 318586010308 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 318586010309 RNA binding site [nucleotide binding]; other site 318586010310 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 318586010311 RNA binding site [nucleotide binding]; other site 318586010312 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 318586010313 RNA binding site [nucleotide binding]; other site 318586010314 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 318586010315 RNA binding site [nucleotide binding]; other site 318586010316 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 318586010317 RNA binding site [nucleotide binding]; other site 318586010318 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 318586010319 IHF dimer interface [polypeptide binding]; other site 318586010320 IHF - DNA interface [nucleotide binding]; other site 318586010321 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 318586010322 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 318586010323 active site 318586010324 Predicted acetyltransferase [General function prediction only]; Region: COG3153 318586010325 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586010326 Coenzyme A binding pocket [chemical binding]; other site 318586010327 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 318586010328 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 318586010329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586010330 catalytic residue [active] 318586010331 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 318586010332 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 318586010333 catalytic residues [active] 318586010334 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 318586010335 hypothetical protein; Provisional; Region: PRK11171 318586010336 Cupin domain; Region: Cupin_2; cl09118 318586010337 Cupin domain; Region: Cupin_2; cl09118 318586010338 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 318586010339 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 318586010340 active site 318586010341 catalytic site [active] 318586010342 tetramer interface [polypeptide binding]; other site 318586010343 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 318586010344 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 318586010345 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 318586010346 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 318586010347 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 318586010348 putative active site [active] 318586010349 hypothetical protein; Provisional; Region: PRK07483 318586010350 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 318586010351 inhibitor-cofactor binding pocket; inhibition site 318586010352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586010353 catalytic residue [active] 318586010354 Uncharacterized conserved protein [Function unknown]; Region: COG5476 318586010355 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 318586010356 MlrC C-terminus; Region: MlrC_C; pfam07171 318586010357 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_16; cd08502 318586010358 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586010359 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586010360 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 318586010361 dimer interface [polypeptide binding]; other site 318586010362 conserved gate region; other site 318586010363 putative PBP binding loops; other site 318586010364 ABC-ATPase subunit interface; other site 318586010365 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 318586010366 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 318586010367 dimer interface [polypeptide binding]; other site 318586010368 conserved gate region; other site 318586010369 putative PBP binding loops; other site 318586010370 ABC-ATPase subunit interface; other site 318586010371 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 318586010372 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 318586010373 Walker A/P-loop; other site 318586010374 ATP binding site [chemical binding]; other site 318586010375 Q-loop/lid; other site 318586010376 ABC transporter signature motif; other site 318586010377 Walker B; other site 318586010378 D-loop; other site 318586010379 H-loop/switch region; other site 318586010380 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586010381 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 318586010382 Walker A/P-loop; other site 318586010383 ATP binding site [chemical binding]; other site 318586010384 Q-loop/lid; other site 318586010385 ABC transporter signature motif; other site 318586010386 Walker B; other site 318586010387 D-loop; other site 318586010388 H-loop/switch region; other site 318586010389 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586010390 Predicted amidohydrolase [General function prediction only]; Region: COG0388 318586010391 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 318586010392 active site 318586010393 catalytic triad [active] 318586010394 dimer interface [polypeptide binding]; other site 318586010395 Uncharacterized conserved protein [Function unknown]; Region: COG2128 318586010396 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586010397 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 318586010398 dimer interface [polypeptide binding]; other site 318586010399 ssDNA binding site [nucleotide binding]; other site 318586010400 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318586010401 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 318586010402 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318586010403 catalytic residue [active] 318586010404 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 318586010405 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 318586010406 dimer interface [polypeptide binding]; other site 318586010407 active site 318586010408 aspartate-rich active site metal binding site; other site 318586010409 allosteric magnesium binding site [ion binding]; other site 318586010410 Schiff base residues; other site 318586010411 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 318586010412 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 318586010413 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 318586010414 ATP binding site [chemical binding]; other site 318586010415 putative Mg++ binding site [ion binding]; other site 318586010416 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 318586010417 nucleotide binding region [chemical binding]; other site 318586010418 ATP-binding site [chemical binding]; other site 318586010419 TRCF domain; Region: TRCF; cl04088 318586010420 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 318586010421 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 318586010422 Walker A motif; other site 318586010423 ATP binding site [chemical binding]; other site 318586010424 Walker B motif; other site 318586010425 arginine finger; other site 318586010426 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 318586010427 Walker A motif; other site 318586010428 ATP binding site [chemical binding]; other site 318586010429 Walker B motif; other site 318586010430 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318586010431 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 318586010432 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586010433 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 318586010434 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 318586010435 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 318586010436 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 318586010437 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 318586010438 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 318586010439 beta subunit interaction interface [polypeptide binding]; other site 318586010440 Walker A motif; other site 318586010441 ATP binding site [chemical binding]; other site 318586010442 Walker B motif; other site 318586010443 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318586010444 ATP synthase; Region: ATP-synt; cl00365 318586010445 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 318586010446 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 318586010447 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 318586010448 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 318586010449 alpha subunit interaction interface [polypeptide binding]; other site 318586010450 Walker A motif; other site 318586010451 ATP binding site [chemical binding]; other site 318586010452 Walker B motif; other site 318586010453 inhibitor binding site; inhibition site 318586010454 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318586010455 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 318586010456 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 318586010457 H-type lectin domain; Region: H_lectin; pfam09458 318586010458 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586010459 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 318586010460 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 318586010461 putative catalytic residue [active] 318586010462 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 318586010463 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 318586010464 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318586010465 active site 318586010466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586010467 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 318586010468 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 318586010469 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 318586010470 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 318586010471 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 318586010472 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 318586010473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010474 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 318586010475 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 318586010476 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 318586010477 non-specific DNA binding site [nucleotide binding]; other site 318586010478 salt bridge; other site 318586010479 sequence-specific DNA binding site [nucleotide binding]; other site 318586010480 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 318586010481 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 318586010482 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 318586010483 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 318586010484 ATP binding site [chemical binding]; other site 318586010485 putative Mg++ binding site [ion binding]; other site 318586010486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010487 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 318586010488 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318586010489 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318586010490 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318586010491 Helix-turn-helix domains; Region: HTH; cl00088 318586010492 putative transposase OrfB; Reviewed; Region: PHA02517 318586010493 HTH-like domain; Region: HTH_21; pfam13276 318586010494 Integrase core domain; Region: rve; cl01316 318586010495 Integrase core domain; Region: rve_3; cl15866 318586010496 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 318586010497 non-specific DNA binding site [nucleotide binding]; other site 318586010498 salt bridge; other site 318586010499 sequence-specific DNA binding site [nucleotide binding]; other site 318586010500 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 318586010501 active site 318586010502 DNA binding site [nucleotide binding] 318586010503 Int/Topo IB signature motif; other site 318586010504 NMT1-like family; Region: NMT1_2; cl15260 318586010505 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318586010506 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 318586010507 dimer interface [polypeptide binding]; other site 318586010508 conserved gate region; other site 318586010509 putative PBP binding loops; other site 318586010510 ABC-ATPase subunit interface; other site 318586010511 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010512 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 318586010513 Walker A/P-loop; other site 318586010514 ATP binding site [chemical binding]; other site 318586010515 Q-loop/lid; other site 318586010516 ABC transporter signature motif; other site 318586010517 Walker B; other site 318586010518 D-loop; other site 318586010519 H-loop/switch region; other site 318586010520 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 318586010521 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 318586010522 dimer interface [polypeptide binding]; other site 318586010523 ADP-ribose binding site [chemical binding]; other site 318586010524 active site 318586010525 nudix motif; other site 318586010526 metal binding site [ion binding]; metal-binding site 318586010527 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 318586010528 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 318586010529 dimer interface [polypeptide binding]; other site 318586010530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586010531 catalytic residue [active] 318586010532 Cortexillin I, coiled coil; Region: Cortex-I_coil; pfam09304 318586010533 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 318586010534 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318586010535 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 318586010536 dimer interface [polypeptide binding]; other site 318586010537 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586010538 ligand binding site [chemical binding]; other site 318586010539 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 318586010540 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 318586010541 DNA gyrase subunit A; Validated; Region: PRK05560 318586010542 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 318586010543 CAP-like domain; other site 318586010544 active site 318586010545 primary dimer interface [polypeptide binding]; other site 318586010546 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318586010547 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318586010548 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318586010549 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318586010550 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318586010551 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 318586010552 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 318586010553 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 318586010554 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 318586010555 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 318586010556 putative coenzyme Q binding site [chemical binding]; other site 318586010557 glutamate dehydrogenase; Provisional; Region: PRK09414 318586010558 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 318586010559 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 318586010560 NAD(P) binding site [chemical binding]; other site 318586010561 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 318586010562 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 318586010563 putative NAD(P) binding site [chemical binding]; other site 318586010564 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 318586010565 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 318586010566 substrate binding pocket [chemical binding]; other site 318586010567 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 318586010568 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 318586010569 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 318586010570 B12 binding site [chemical binding]; other site 318586010571 cobalt ligand [ion binding]; other site 318586010572 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318586010573 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 318586010574 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586010575 signal recognition particle protein; Provisional; Region: PRK10867 318586010576 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 318586010577 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 318586010578 P loop; other site 318586010579 GTP binding site [chemical binding]; other site 318586010580 Signal peptide binding domain; Region: SRP_SPB; pfam02978 318586010581 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318586010582 Chorismate mutase type II; Region: CM_2; cl00693 318586010583 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 318586010584 RimM N-terminal domain; Region: RimM; pfam01782 318586010585 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 318586010586 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 318586010587 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 318586010588 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 318586010589 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 318586010590 ATPase MipZ; Region: MipZ; pfam09140 318586010591 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 318586010592 P-loop; other site 318586010593 Magnesium ion binding site [ion binding]; other site 318586010594 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318586010595 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 318586010596 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318586010597 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 318586010598 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 318586010599 E3 interaction surface; other site 318586010600 lipoyl attachment site [posttranslational modification]; other site 318586010601 e3 binding domain; Region: E3_binding; pfam02817 318586010602 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 318586010603 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 318586010604 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 318586010605 E3 interaction surface; other site 318586010606 lipoyl attachment site [posttranslational modification]; other site 318586010607 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 318586010608 alpha subunit interface [polypeptide binding]; other site 318586010609 TPP binding site [chemical binding]; other site 318586010610 heterodimer interface [polypeptide binding]; other site 318586010611 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318586010612 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 318586010613 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 318586010614 tetramer interface [polypeptide binding]; other site 318586010615 TPP-binding site [chemical binding]; other site 318586010616 heterodimer interface [polypeptide binding]; other site 318586010617 phosphorylation loop region [posttranslational modification] 318586010618 Septum formation initiator; Region: DivIC; cl11433 318586010619 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13013 318586010620 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318586010621 metal binding site [ion binding]; metal-binding site 318586010622 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 318586010623 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 318586010624 intersubunit interface [polypeptide binding]; other site 318586010625 active site 318586010626 catalytic residue [active] 318586010627 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586010628 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586010629 NAD(P) binding site [chemical binding]; other site 318586010630 catalytic residues [active] 318586010631 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586010632 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 318586010633 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 318586010634 MoxR-like ATPases [General function prediction only]; Region: COG0714 318586010635 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 318586010636 Walker A motif; other site 318586010637 ATP binding site [chemical binding]; other site 318586010638 Walker B motif; other site 318586010639 arginine finger; other site 318586010640 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 318586010641 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 318586010642 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 318586010643 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 318586010644 Fibronectin type III-like domain; Region: Fn3-like; cl15273 318586010645 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 318586010646 Filamin/ABP280 repeat; Region: Filamin; pfam00630 318586010647 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 318586010648 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 318586010649 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 318586010650 active site 318586010651 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 318586010652 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 318586010653 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 318586010654 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 318586010655 homotrimer interaction site [polypeptide binding]; other site 318586010656 putative active site [active] 318586010657 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318586010658 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318586010659 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 318586010660 S-adenosylmethionine binding site [chemical binding]; other site 318586010661 Predicted membrane protein [Function unknown]; Region: COG3748 318586010662 Protein of unknown function (DUF989); Region: DUF989; pfam06181 318586010663 Cytochrome c; Region: Cytochrom_C; cl11414 318586010664 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 318586010665 active site 318586010666 homotetramer interface [polypeptide binding]; other site 318586010667 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 318586010668 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 318586010669 active site 318586010670 putative substrate binding pocket [chemical binding]; other site 318586010671 xanthine permease; Region: pbuX; TIGR03173 318586010672 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 318586010673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586010674 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 318586010675 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 318586010676 dimer interface [polypeptide binding]; other site 318586010677 active site 318586010678 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318586010679 substrate binding site [chemical binding]; other site 318586010680 catalytic residue [active] 318586010681 serine racemase; Region: PLN02970 318586010682 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 318586010683 tetramer interface [polypeptide binding]; other site 318586010684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586010685 catalytic residue [active] 318586010686 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 318586010687 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 318586010688 homodimer interface [polypeptide binding]; other site 318586010689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586010690 catalytic residue [active] 318586010691 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586010692 Helix-turn-helix domains; Region: HTH; cl00088 318586010693 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586010694 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 318586010695 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 318586010696 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 318586010697 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 318586010698 dimerization interface [polypeptide binding]; other site 318586010699 putative ATP binding site [chemical binding]; other site 318586010700 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 318586010701 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 318586010702 active site 318586010703 substrate binding site [chemical binding]; other site 318586010704 cosubstrate binding site; other site 318586010705 catalytic site [active] 318586010706 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 318586010707 TM-ABC transporter signature motif; other site 318586010708 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 318586010709 TM-ABC transporter signature motif; other site 318586010710 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586010711 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 318586010712 Walker A/P-loop; other site 318586010713 ATP binding site [chemical binding]; other site 318586010714 Q-loop/lid; other site 318586010715 ABC transporter signature motif; other site 318586010716 Walker B; other site 318586010717 D-loop; other site 318586010718 H-loop/switch region; other site 318586010719 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586010720 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 318586010721 Walker A/P-loop; other site 318586010722 ATP binding site [chemical binding]; other site 318586010723 Q-loop/lid; other site 318586010724 ABC transporter signature motif; other site 318586010725 Walker B; other site 318586010726 D-loop; other site 318586010727 H-loop/switch region; other site 318586010728 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 318586010729 putative ligand binding site [chemical binding]; other site 318586010730 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 318586010731 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 318586010732 conserved cys residue [active] 318586010733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586010734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586010735 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 318586010736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 318586010737 PAS domain; Region: PAS_5; pfam07310 318586010738 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 318586010739 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 318586010740 catalytic site [active] 318586010741 G-X2-G-X-G-K; other site 318586010742 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 318586010743 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 318586010744 trimer interface [polypeptide binding]; other site 318586010745 putative metal binding site [ion binding]; other site 318586010746 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318586010747 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 318586010748 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 318586010749 dimer interface [polypeptide binding]; other site 318586010750 phosphorylation site [posttranslational modification] 318586010751 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 318586010752 ATP binding site [chemical binding]; other site 318586010753 Mg2+ binding site [ion binding]; other site 318586010754 G-X-G motif; other site 318586010755 amidophosphoribosyltransferase; Provisional; Region: PRK09123 318586010756 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 318586010757 active site 318586010758 tetramer interface [polypeptide binding]; other site 318586010759 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318586010760 active site 318586010761 Colicin V production protein; Region: Colicin_V; cl00567 318586010762 DNA repair protein RadA; Provisional; Region: PRK11823 318586010763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010764 Walker A motif; other site 318586010765 ATP binding site [chemical binding]; other site 318586010766 Walker B motif; other site 318586010767 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 318586010768 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 318586010769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586010770 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586010771 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 318586010772 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586010773 DNA-binding site [nucleotide binding]; DNA binding site 318586010774 FCD domain; Region: FCD; cl11656 318586010775 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 318586010776 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 318586010777 helix-hairpin-helix signature motif; other site 318586010778 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 318586010779 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 318586010780 putative metal binding site [ion binding]; other site 318586010781 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586010782 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 318586010783 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 318586010784 active site 318586010785 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 318586010786 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 318586010787 FeS/SAM binding site; other site 318586010788 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 318586010789 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 318586010790 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 318586010791 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 318586010792 active site 318586010793 HIGH motif; other site 318586010794 dimer interface [polypeptide binding]; other site 318586010795 KMSKS motif; other site 318586010796 Rhomboid family; Region: Rhomboid; cl11446 318586010797 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 318586010798 PII uridylyl-transferase; Provisional; Region: PRK05092 318586010799 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318586010800 metal binding triad; other site 318586010801 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318586010802 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 318586010803 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318586010804 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 318586010805 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 318586010806 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586010807 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 318586010808 putative ligand binding site [chemical binding]; other site 318586010809 Predicted methyltransferases [General function prediction only]; Region: COG0313 318586010810 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318586010811 Restriction endonuclease; Region: Mrr_cat; cl00516 318586010812 glutathione synthetase; Provisional; Region: PRK05246 318586010813 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 318586010814 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586010815 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 318586010816 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 318586010817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010818 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 318586010819 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 318586010820 Flavoprotein; Region: Flavoprotein; cl08021 318586010821 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 318586010822 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 318586010823 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 318586010824 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586010825 catalytic residue [active] 318586010826 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 318586010827 putative ABC transporter; Region: ycf24; CHL00085 318586010828 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 318586010829 FeS assembly ATPase SufC; Region: sufC; TIGR01978 318586010830 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 318586010831 Walker A/P-loop; other site 318586010832 ATP binding site [chemical binding]; other site 318586010833 Q-loop/lid; other site 318586010834 ABC transporter signature motif; other site 318586010835 Walker B; other site 318586010836 D-loop; other site 318586010837 H-loop/switch region; other site 318586010838 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 318586010839 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 318586010840 Yip1 domain; Region: Yip1; cl12048 318586010841 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 318586010842 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 318586010843 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318586010844 catalytic residue [active] 318586010845 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 318586010846 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 318586010847 dimerization interface [polypeptide binding]; other site 318586010848 ATP binding site [chemical binding]; other site 318586010849 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 318586010850 dimerization interface [polypeptide binding]; other site 318586010851 ATP binding site [chemical binding]; other site 318586010852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586010853 Helix-turn-helix domains; Region: HTH; cl00088 318586010854 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 318586010855 putative effector binding pocket; other site 318586010856 dimerization interface [polypeptide binding]; other site 318586010857 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318586010858 CcmE; Region: CcmE; cl00994 318586010859 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 318586010860 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 318586010861 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 318586010862 Cytochrome C biogenesis protein; Region: CcmH; cl01179 318586010863 enoyl-CoA hydratase; Provisional; Region: PRK08140 318586010864 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 318586010865 substrate binding site [chemical binding]; other site 318586010866 oxyanion hole (OAH) forming residues; other site 318586010867 trimer interface [polypeptide binding]; other site 318586010868 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 318586010869 Protein of unknown function (DUF983); Region: DUF983; cl02211 318586010870 response regulator PleD; Reviewed; Region: pleD; PRK09581 318586010871 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 318586010872 active site 318586010873 phosphorylation site [posttranslational modification] 318586010874 intermolecular recognition site; other site 318586010875 dimerization interface [polypeptide binding]; other site 318586010876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318586010877 metal binding site [ion binding]; metal-binding site 318586010878 active site 318586010879 I-site; other site 318586010880 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 318586010881 aminotransferase; Provisional; Region: PRK06105 318586010882 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 318586010883 inhibitor-cofactor binding pocket; inhibition site 318586010884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586010885 catalytic residue [active] 318586010886 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 318586010887 Peptidase family M48; Region: Peptidase_M48; cl12018 318586010888 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 318586010889 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 318586010890 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 318586010891 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 318586010892 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586010893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586010894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586010895 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 318586010896 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 318586010897 putative nucleotide binding site [chemical binding]; other site 318586010898 uridine monophosphate binding site [chemical binding]; other site 318586010899 homohexameric interface [polypeptide binding]; other site 318586010900 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 318586010901 hinge region; other site 318586010902 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 318586010903 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 318586010904 catalytic residue [active] 318586010905 putative FPP diphosphate binding site; other site 318586010906 putative FPP binding hydrophobic cleft; other site 318586010907 dimer interface [polypeptide binding]; other site 318586010908 putative IPP diphosphate binding site; other site 318586010909 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 318586010910 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 318586010911 RIP metalloprotease RseP; Region: TIGR00054 318586010912 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 318586010913 active site 318586010914 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 318586010915 protein binding site [polypeptide binding]; other site 318586010916 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 318586010917 protein binding site [polypeptide binding]; other site 318586010918 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 318586010919 putative substrate binding region [chemical binding]; other site 318586010920 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 318586010921 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318586010922 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318586010923 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318586010924 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318586010925 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318586010926 Surface antigen; Region: Bac_surface_Ag; cl03097 318586010927 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 318586010928 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 318586010929 active site 318586010930 tetramer interface [polypeptide binding]; other site 318586010931 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 318586010932 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 318586010933 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 318586010934 active site 318586010935 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 318586010936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586010937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586010938 Protein of unknown function, DUF488; Region: DUF488; cl01246 318586010939 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 318586010940 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 318586010941 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 318586010942 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 318586010943 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 318586010944 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 318586010945 dimer interface [polypeptide binding]; other site 318586010946 phosphorylation site [posttranslational modification] 318586010947 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 318586010948 ATP binding site [chemical binding]; other site 318586010949 Mg2+ binding site [ion binding]; other site 318586010950 G-X-G motif; other site 318586010951 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318586010952 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 318586010953 active site 318586010954 phosphorylation site [posttranslational modification] 318586010955 intermolecular recognition site; other site 318586010956 dimerization interface [polypeptide binding]; other site 318586010957 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 318586010958 Walker A motif; other site 318586010959 ATP binding site [chemical binding]; other site 318586010960 Walker B motif; other site 318586010961 arginine finger; other site 318586010962 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 318586010963 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 318586010964 putative molybdopterin cofactor binding site [chemical binding]; other site 318586010965 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 318586010966 putative molybdopterin cofactor binding site; other site 318586010967 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 318586010968 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 318586010969 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 318586010970 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 318586010971 Clp amino terminal domain; Region: Clp_N; pfam02861 318586010972 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 318586010973 Walker A motif; other site 318586010974 ATP binding site [chemical binding]; other site 318586010975 Walker B motif; other site 318586010976 arginine finger; other site 318586010977 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 318586010978 Walker A motif; other site 318586010979 ATP binding site [chemical binding]; other site 318586010980 Walker B motif; other site 318586010981 arginine finger; other site 318586010982 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318586010983 MarC family integral membrane protein; Region: MarC; cl00919 318586010984 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 318586010985 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 318586010986 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 318586010987 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 318586010988 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586010989 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 318586010990 putative ligand binding site [chemical binding]; other site 318586010991 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 318586010992 TM-ABC transporter signature motif; other site 318586010993 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 318586010994 TM-ABC transporter signature motif; other site 318586010995 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 318586010996 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 318586010997 Walker A/P-loop; other site 318586010998 ATP binding site [chemical binding]; other site 318586010999 Q-loop/lid; other site 318586011000 ABC transporter signature motif; other site 318586011001 Walker B; other site 318586011002 D-loop; other site 318586011003 H-loop/switch region; other site 318586011004 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 318586011005 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 318586011006 Walker A/P-loop; other site 318586011007 ATP binding site [chemical binding]; other site 318586011008 Q-loop/lid; other site 318586011009 ABC transporter signature motif; other site 318586011010 Walker B; other site 318586011011 D-loop; other site 318586011012 H-loop/switch region; other site 318586011013 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 318586011014 putative catalytic residue [active] 318586011015 phosphoglycolate phosphatase; Provisional; Region: PRK13222 318586011016 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 318586011017 motif II; other site 318586011018 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 318586011019 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 318586011020 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 318586011021 G1 box; other site 318586011022 putative GEF interaction site [polypeptide binding]; other site 318586011023 GTP/Mg2+ binding site [chemical binding]; other site 318586011024 Switch I region; other site 318586011025 G2 box; other site 318586011026 G3 box; other site 318586011027 Switch II region; other site 318586011028 G4 box; other site 318586011029 G5 box; other site 318586011030 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 318586011031 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 318586011032 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 318586011033 catalytic loop [active] 318586011034 iron binding site [ion binding]; other site 318586011035 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 318586011036 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 318586011037 generic binding surface I; other site 318586011038 generic binding surface II; other site 318586011039 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 318586011040 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 318586011041 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586011042 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 318586011043 2-isopropylmalate synthase; Validated; Region: PRK00915 318586011044 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 318586011045 active site 318586011046 catalytic residues [active] 318586011047 metal binding site [ion binding]; metal-binding site 318586011048 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 318586011049 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 318586011050 rod shape-determining protein MreB; Provisional; Region: PRK13927 318586011051 Cell division protein FtsA; Region: FtsA; cl11496 318586011052 rod shape-determining protein MreC; Region: MreC; pfam04085 318586011053 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 318586011054 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 318586011055 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586011056 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 318586011057 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 318586011058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586011059 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 318586011060 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 318586011061 Substrate binding site; other site 318586011062 Cupin domain; Region: Cupin_2; cl09118 318586011063 NMT1/THI5 like; Region: NMT1; pfam09084 318586011064 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 318586011065 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 318586011066 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586011067 ArsC family; Region: ArsC; pfam03960 318586011068 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 318586011069 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586011070 NnrS protein; Region: NnrS; cl01258 318586011071 Chromate transporter; Region: Chromate_transp; pfam02417 318586011072 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 318586011073 Chromate transporter; Region: Chromate_transp; pfam02417 318586011074 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 318586011075 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 318586011076 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 318586011077 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 318586011078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586011079 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 318586011080 Cupin domain; Region: Cupin_2; cl09118 318586011081 Phospholipid methyltransferase; Region: PEMT; cl00763 318586011082 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 318586011083 active site 318586011084 aminopeptidase N; Provisional; Region: pepN; PRK14015 318586011085 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 318586011086 Zn binding site [ion binding]; other site 318586011087 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586011088 putative acyl-acceptor binding pocket; other site 318586011089 gamma-glutamyl kinase; Provisional; Region: PRK05429 318586011090 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 318586011091 nucleotide binding site [chemical binding]; other site 318586011092 homotetrameric interface [polypeptide binding]; other site 318586011093 putative phosphate binding site [ion binding]; other site 318586011094 putative allosteric binding site; other site 318586011095 PUA domain; Region: PUA; cl00607 318586011096 GTPase CgtA; Reviewed; Region: obgE; PRK12299 318586011097 GTP1/OBG; Region: GTP1_OBG; pfam01018 318586011098 Obg GTPase; Region: Obg; cd01898 318586011099 G1 box; other site 318586011100 GTP/Mg2+ binding site [chemical binding]; other site 318586011101 Switch I region; other site 318586011102 G2 box; other site 318586011103 G3 box; other site 318586011104 Switch II region; other site 318586011105 G4 box; other site 318586011106 G5 box; other site 318586011107 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 318586011108 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 318586011109 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 318586011110 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318586011111 putative catalytic site [active] 318586011112 putative metal binding site [ion binding]; other site 318586011113 putative phosphate binding site [ion binding]; other site 318586011114 enolase; Provisional; Region: eno; PRK00077 318586011115 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 318586011116 dimer interface [polypeptide binding]; other site 318586011117 metal binding site [ion binding]; metal-binding site 318586011118 substrate binding pocket [chemical binding]; other site 318586011119 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 318586011120 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 318586011121 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 318586011122 active site 318586011123 catalytic residues [active] 318586011124 metal binding site [ion binding]; metal-binding site 318586011125 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 318586011126 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 318586011127 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586011128 active site 318586011129 HIGH motif; other site 318586011130 nucleotide binding site [chemical binding]; other site 318586011131 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 318586011132 KMSKS motif; other site 318586011133 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 318586011134 Protein of unknown function (DUF419); Region: DUF419; cl15265 318586011135 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586011136 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586011137 Walker A/P-loop; other site 318586011138 ATP binding site [chemical binding]; other site 318586011139 Q-loop/lid; other site 318586011140 ABC transporter signature motif; other site 318586011141 Walker B; other site 318586011142 D-loop; other site 318586011143 H-loop/switch region; other site 318586011144 TOBE domain; Region: TOBE_2; cl01440 318586011145 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 318586011146 dimer interface [polypeptide binding]; other site 318586011147 conserved gate region; other site 318586011148 putative PBP binding loops; other site 318586011149 ABC-ATPase subunit interface; other site 318586011150 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 318586011151 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 318586011152 putative PBP binding loops; other site 318586011153 dimer interface [polypeptide binding]; other site 318586011154 ABC-ATPase subunit interface; other site 318586011155 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 318586011156 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 318586011157 RmuC family; Region: RmuC; pfam02646 318586011158 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586011159 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 318586011160 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 318586011161 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318586011162 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 318586011163 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586011164 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318586011165 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 318586011166 DNA binding residues [nucleotide binding] 318586011167 DNA primase, catalytic core; Region: dnaG; TIGR01391 318586011168 CHC2 zinc finger; Region: zf-CHC2; cl15369 318586011169 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 318586011170 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 318586011171 active site 318586011172 metal binding site [ion binding]; metal-binding site 318586011173 interdomain interaction site; other site 318586011174 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 318586011175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586011176 Helix-turn-helix domains; Region: HTH; cl00088 318586011177 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 318586011178 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 318586011179 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 318586011180 phosphate binding site [ion binding]; other site 318586011181 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 318586011182 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 318586011183 5S rRNA interface [nucleotide binding]; other site 318586011184 CTC domain interface [polypeptide binding]; other site 318586011185 L16 interface [polypeptide binding]; other site 318586011186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586011187 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 318586011188 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586011189 active site 318586011190 HIGH motif; other site 318586011191 nucleotide binding site [chemical binding]; other site 318586011192 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586011193 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 318586011194 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 318586011195 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 318586011196 trimerization site [polypeptide binding]; other site 318586011197 active site 318586011198 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 318586011199 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 318586011200 generic binding surface II; other site 318586011201 ssDNA binding site; other site 318586011202 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 318586011203 ATP binding site [chemical binding]; other site 318586011204 putative Mg++ binding site [ion binding]; other site 318586011205 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 318586011206 nucleotide binding region [chemical binding]; other site 318586011207 ATP-binding site [chemical binding]; other site 318586011208 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 318586011209 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 318586011210 nucleotide binding pocket [chemical binding]; other site 318586011211 K-X-D-G motif; other site 318586011212 catalytic site [active] 318586011213 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 318586011214 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 318586011215 Helix-turn-helix domains; Region: HTH; cl00088 318586011216 DNA binding site [nucleotide binding] 318586011217 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 318586011218 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 318586011219 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318586011220 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318586011221 active site 318586011222 metal binding site [ion binding]; metal-binding site 318586011223 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 318586011224 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 318586011225 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 318586011226 active site 318586011227 DNA binding site [nucleotide binding] 318586011228 Int/Topo IB signature motif; other site 318586011229 Response regulator receiver domain; Region: Response_reg; pfam00072 318586011230 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 318586011231 active site 318586011232 phosphorylation site [posttranslational modification] 318586011233 intermolecular recognition site; other site 318586011234 dimerization interface [polypeptide binding]; other site 318586011235 Helix-turn-helix domains; Region: HTH; cl00088 318586011236 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 318586011237 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 318586011238 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 318586011239 Ligand Binding Site [chemical binding]; other site 318586011240 Fe-S metabolism associated domain; Region: SufE; cl00951 318586011241 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318586011242 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586011243 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 318586011244 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 318586011245 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586011246 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586011247 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 318586011248 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 318586011249 active site 318586011250 non-prolyl cis peptide bond; other site 318586011251 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 318586011252 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 318586011253 Walker A/P-loop; other site 318586011254 ATP binding site [chemical binding]; other site 318586011255 Q-loop/lid; other site 318586011256 ABC transporter signature motif; other site 318586011257 Walker B; other site 318586011258 D-loop; other site 318586011259 H-loop/switch region; other site 318586011260 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586011261 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 318586011262 dimer interface [polypeptide binding]; other site 318586011263 conserved gate region; other site 318586011264 putative PBP binding loops; other site 318586011265 ABC-ATPase subunit interface; other site 318586011266 NMT1-like family; Region: NMT1_2; cl15260 318586011267 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 318586011268 Uncharacterized conserved protein [Function unknown]; Region: COG3777 318586011269 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 318586011270 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 318586011271 active site 2 [active] 318586011272 active site 1 [active] 318586011273 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586011274 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586011275 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 318586011276 dimer interface [polypeptide binding]; other site 318586011277 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586011278 metal binding site [ion binding]; metal-binding site 318586011279 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 318586011280 S-adenosylmethionine binding site [chemical binding]; other site 318586011281 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 318586011282 Helix-turn-helix domains; Region: HTH; cl00088 318586011283 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 318586011284 putative dimerization interface [polypeptide binding]; other site 318586011285 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 318586011286 Fumarase C-terminus; Region: Fumerase_C; cl00795 318586011287 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586011288 DctM-like transporters; Region: DctM; pfam06808 318586011289 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586011290 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586011291 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586011292 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 318586011293 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 318586011294 HflX GTPase family; Region: HflX; cd01878 318586011295 G1 box; other site 318586011296 GTP/Mg2+ binding site [chemical binding]; other site 318586011297 Switch I region; other site 318586011298 G2 box; other site 318586011299 G3 box; other site 318586011300 Switch II region; other site 318586011301 G4 box; other site 318586011302 G5 box; other site 318586011303 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 318586011304 Sm1 motif; other site 318586011305 intra - hexamer interaction site; other site 318586011306 inter - hexamer interaction site [polypeptide binding]; other site 318586011307 nucleotide binding pocket [chemical binding]; other site 318586011308 Sm2 motif; other site 318586011309 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 318586011310 Cation transport protein; Region: TrkH; cl10514 318586011311 Cation transport protein; Region: TrkH; cl10514 318586011312 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 318586011313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586011314 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 318586011315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586011316 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 318586011317 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318586011318 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 318586011319 active site 318586011320 phosphorylation site [posttranslational modification] 318586011321 intermolecular recognition site; other site 318586011322 dimerization interface [polypeptide binding]; other site 318586011323 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 318586011324 Walker A motif; other site 318586011325 ATP binding site [chemical binding]; other site 318586011326 Walker B motif; other site 318586011327 arginine finger; other site 318586011328 Helix-turn-helix domains; Region: HTH; cl00088 318586011329 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 318586011330 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 318586011331 dimerization interface [polypeptide binding]; other site 318586011332 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 318586011333 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 318586011334 dimer interface [polypeptide binding]; other site 318586011335 phosphorylation site [posttranslational modification] 318586011336 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 318586011337 ATP binding site [chemical binding]; other site 318586011338 Mg2+ binding site [ion binding]; other site 318586011339 G-X-G motif; other site 318586011340 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 318586011341 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 318586011342 active site 318586011343 phosphorylation site [posttranslational modification] 318586011344 intermolecular recognition site; other site 318586011345 dimerization interface [polypeptide binding]; other site 318586011346 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 318586011347 Walker A motif; other site 318586011348 ATP binding site [chemical binding]; other site 318586011349 Walker B motif; other site 318586011350 arginine finger; other site 318586011351 Helix-turn-helix domains; Region: HTH; cl00088 318586011352 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 318586011353 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 318586011354 dimer interface [polypeptide binding]; other site 318586011355 phosphorylation site [posttranslational modification] 318586011356 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 318586011357 ATP binding site [chemical binding]; other site 318586011358 Mg2+ binding site [ion binding]; other site 318586011359 G-X-G motif; other site 318586011360 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 318586011361 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 318586011362 FMN binding site [chemical binding]; other site 318586011363 active site 318586011364 catalytic residues [active] 318586011365 substrate binding site [chemical binding]; other site 318586011366 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 318586011367 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 318586011368 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 318586011369 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 318586011370 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 318586011371 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 318586011372 ABC-ATPase subunit interface; other site 318586011373 dimer interface [polypeptide binding]; other site 318586011374 putative PBP binding regions; other site 318586011375 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 318586011376 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 318586011377 Helix-turn-helix domains; Region: HTH; cl00088 318586011378 metal binding site 2 [ion binding]; metal-binding site 318586011379 putative DNA binding helix; other site 318586011380 metal binding site 1 [ion binding]; metal-binding site 318586011381 dimer interface [polypeptide binding]; other site 318586011382 structural Zn2+ binding site [ion binding]; other site 318586011383 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 318586011384 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 318586011385 metal binding site [ion binding]; metal-binding site 318586011386 Hemin uptake protein hemP; Region: hemP; cl10043 318586011387 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 318586011388 RNA binding surface [nucleotide binding]; other site 318586011389 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 318586011390 pseudouridine synthase; Region: TIGR00093 318586011391 active site 318586011392 transcription termination factor Rho; Provisional; Region: PRK12678 318586011393 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 318586011394 nucleoside/Zn binding site; other site 318586011395 dimer interface [polypeptide binding]; other site 318586011396 catalytic motif [active] 318586011397 pyruvate carboxylase; Reviewed; Region: PRK12999 318586011398 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318586011399 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586011400 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 318586011401 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 318586011402 active site 318586011403 catalytic residues [active] 318586011404 metal binding site [ion binding]; metal-binding site 318586011405 homodimer binding site [polypeptide binding]; other site 318586011406 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 318586011407 carboxyltransferase (CT) interaction site; other site 318586011408 biotinylation site [posttranslational modification]; other site 318586011409 Sulphur transport; Region: Sulf_transp; cl01018 318586011410 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 318586011411 dimerization interface [polypeptide binding]; other site 318586011412 putative DNA binding site [nucleotide binding]; other site 318586011413 putative Zn2+ binding site [ion binding]; other site 318586011414 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586011415 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 318586011416 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 318586011417 catalytic residues [active] 318586011418 Cytochrome c; Region: Cytochrom_C; cl11414 318586011419 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 318586011420 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 318586011421 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 318586011422 Cytochrome c [Energy production and conversion]; Region: COG3258 318586011423 Cytochrome c [Energy production and conversion]; Region: COG3258 318586011424 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 318586011425 active site 318586011426 metal binding site [ion binding]; metal-binding site 318586011427 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318586011428 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 318586011429 Moco binding site; other site 318586011430 metal coordination site [ion binding]; other site 318586011431 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 318586011432 Cytochrome c; Region: Cytochrom_C; cl11414 318586011433 Cytochrome c; Region: Cytochrom_C; cl11414 318586011434 Cytochrome c; Region: Cytochrom_C; cl11414 318586011435 Cytochrome c; Region: Cytochrom_C; cl11414 318586011436 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 318586011437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586011438 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 318586011439 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586011440 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586011441 Sulphur transport; Region: Sulf_transp; cl01018 318586011442 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 318586011443 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 318586011444 active site 318586011445 Helix-turn-helix domains; Region: HTH; cl00088 318586011446 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586011447 NnrS protein; Region: NnrS; cl01258 318586011448 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 318586011449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586011450 Walker A/P-loop; other site 318586011451 ATP binding site [chemical binding]; other site 318586011452 Q-loop/lid; other site 318586011453 ABC transporter signature motif; other site 318586011454 Walker B; other site 318586011455 D-loop; other site 318586011456 H-loop/switch region; other site 318586011457 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586011458 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 318586011459 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; cl15306 318586011460 substrate binding pocket [chemical binding]; other site 318586011461 membrane-bound complex binding site; other site 318586011462 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 318586011463 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 318586011464 Predicted transcriptional regulator [Transcription]; Region: COG1959 318586011465 Helix-turn-helix domains; Region: HTH; cl00088 318586011466 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586011467 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 318586011468 N-terminal plug; other site 318586011469 ligand-binding site [chemical binding]; other site 318586011470 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 318586011471 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 318586011472 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 318586011473 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 318586011474 N- and C-terminal domain interface [polypeptide binding]; other site 318586011475 active site 318586011476 MgATP binding site [chemical binding]; other site 318586011477 catalytic site [active] 318586011478 metal binding site [ion binding]; metal-binding site 318586011479 carbohydrate binding site [chemical binding]; other site 318586011480 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 318586011481 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 318586011482 motif II; other site 318586011483 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 318586011484 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 318586011485 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 318586011486 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 318586011487 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 318586011488 Walker A/P-loop; other site 318586011489 ATP binding site [chemical binding]; other site 318586011490 Q-loop/lid; other site 318586011491 ABC transporter signature motif; other site 318586011492 Walker B; other site 318586011493 D-loop; other site 318586011494 H-loop/switch region; other site 318586011495 TOBE domain; Region: TOBE_2; cl01440 318586011496 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 318586011497 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 318586011498 dimer interface [polypeptide binding]; other site 318586011499 conserved gate region; other site 318586011500 putative PBP binding loops; other site 318586011501 ABC-ATPase subunit interface; other site 318586011502 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 318586011503 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 318586011504 conserved gate region; other site 318586011505 putative PBP binding loops; other site 318586011506 ABC-ATPase subunit interface; other site 318586011507 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 318586011508 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 318586011509 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 318586011510 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 318586011511 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 318586011512 active site 318586011513 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 318586011514 Ligand Binding Site [chemical binding]; other site 318586011515 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 318586011516 nucleotide binding site [chemical binding]; other site 318586011517 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 318586011518 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 318586011519 Walker A/P-loop; other site 318586011520 ATP binding site [chemical binding]; other site 318586011521 Q-loop/lid; other site 318586011522 ABC transporter signature motif; other site 318586011523 Walker B; other site 318586011524 D-loop; other site 318586011525 H-loop/switch region; other site 318586011526 TOBE domain; Region: TOBE_2; cl01440 318586011527 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 318586011528 dimer interface [polypeptide binding]; other site 318586011529 conserved gate region; other site 318586011530 putative PBP binding loops; other site 318586011531 ABC-ATPase subunit interface; other site 318586011532 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 318586011533 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 318586011534 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 318586011535 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 318586011536 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 318586011537 heme binding site [chemical binding]; other site 318586011538 substrate binding site [chemical binding]; other site 318586011539 Bacterial transcriptional activator domain; Region: BTAD; smart01043 318586011540 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 318586011541 TPR motif; other site 318586011542 binding surface 318586011543 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 318586011544 NADPH bind site [chemical binding]; other site 318586011545 putative FMN binding site [chemical binding]; other site 318586011546 YcaO-like family; Region: YcaO; pfam02624 318586011547 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 318586011548 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 318586011549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586011550 ATP binding site [chemical binding]; other site 318586011551 substrate interface [chemical binding]; other site 318586011552 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 318586011553 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 318586011554 B12 binding site [chemical binding]; other site 318586011555 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 318586011556 FeS/SAM binding site; other site 318586011557 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318586011558 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586011559 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 318586011560 Walker A/P-loop; other site 318586011561 ATP binding site [chemical binding]; other site 318586011562 Q-loop/lid; other site 318586011563 ABC transporter signature motif; other site 318586011564 Walker B; other site 318586011565 D-loop; other site 318586011566 H-loop/switch region; other site 318586011567 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 318586011568 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 318586011569 N-terminal plug; other site 318586011570 ligand-binding site [chemical binding]; other site 318586011571 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 318586011572 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 318586011573 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 318586011574 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 318586011575 putative hemin binding site; other site 318586011576 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 318586011577 ABC-ATPase subunit interface; other site 318586011578 dimer interface [polypeptide binding]; other site 318586011579 putative PBP binding regions; other site 318586011580 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 318586011581 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 318586011582 Walker A/P-loop; other site 318586011583 ATP binding site [chemical binding]; other site 318586011584 Q-loop/lid; other site 318586011585 ABC transporter signature motif; other site 318586011586 Walker B; other site 318586011587 D-loop; other site 318586011588 H-loop/switch region; other site 318586011589 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 318586011590 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 318586011591 putative NAD(P) binding site [chemical binding]; other site 318586011592 putative substrate binding site [chemical binding]; other site 318586011593 catalytic Zn binding site [ion binding]; other site 318586011594 structural Zn binding site [ion binding]; other site 318586011595 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 318586011596 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 318586011597 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 318586011598 Acetokinase family; Region: Acetate_kinase; cl01029 318586011599 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318586011600 Response regulator receiver domain; Region: Response_reg; pfam00072 318586011601 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 318586011602 active site 318586011603 phosphorylation site [posttranslational modification] 318586011604 intermolecular recognition site; other site 318586011605 dimerization interface [polypeptide binding]; other site 318586011606 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 318586011607 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 318586011608 Na binding site [ion binding]; other site 318586011609 Protein of unknown function, DUF485; Region: DUF485; cl01231 318586011610 acetyl-CoA synthetase; Provisional; Region: PRK00174 318586011611 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 318586011612 AMP-binding enzyme; Region: AMP-binding; cl15778 318586011613 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586011614 ApbE family; Region: ApbE; cl00643 318586011615 NosL; Region: NosL; cl01769 318586011616 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586011617 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318586011618 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586011619 Walker A/P-loop; other site 318586011620 ATP binding site [chemical binding]; other site 318586011621 Q-loop/lid; other site 318586011622 ABC transporter signature motif; other site 318586011623 Walker B; other site 318586011624 D-loop; other site 318586011625 H-loop/switch region; other site 318586011626 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 318586011627 nitrous-oxide reductase; Validated; Region: PRK02888 318586011628 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318586011629 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 318586011630 FMN-binding domain; Region: FMN_bind; cl01081 318586011631 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 318586011632 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318586011633 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318586011634 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318586011635 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 318586011636 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 318586011637 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 318586011638 Flavoprotein; Region: Flavoprotein; cl08021 318586011639 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 318586011640 SCP-2 sterol transfer family; Region: SCP2; cl01225 318586011641 Peptidase family U32; Region: Peptidase_U32; cl03113 318586011642 Peptidase family U32; Region: Peptidase_U32; cl03113 318586011643 NnrS protein; Region: NnrS; cl01258 318586011644 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586011645 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 318586011646 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318586011647 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 318586011648 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 318586011649 nitrate reductase, beta subunit; Region: narH; TIGR01660 318586011650 4Fe-4S binding domain; Region: Fer4; cl02805 318586011651 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 318586011652 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 318586011653 [4Fe-4S] binding site [ion binding]; other site 318586011654 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 318586011655 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 318586011656 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 318586011657 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 318586011658 molybdopterin cofactor binding site; other site 318586011659 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 318586011660 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 318586011661 putative substrate translocation pore; other site 318586011662 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 318586011663 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 318586011664 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 318586011665 ligand binding site [chemical binding]; other site 318586011666 flexible hinge region; other site 318586011667 Helix-turn-helix domains; Region: HTH; cl00088 318586011668 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 318586011669 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 318586011670 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 318586011671 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 318586011672 DNA binding site [nucleotide binding] 318586011673 active site 318586011674 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 318586011675 FAD binding pocket [chemical binding]; other site 318586011676 FAD binding motif [chemical binding]; other site 318586011677 phosphate binding motif [ion binding]; other site 318586011678 NAD binding pocket [chemical binding]; other site 318586011679 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 318586011680 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 318586011681 putative substrate translocation pore; other site 318586011682 Helix-turn-helix domains; Region: HTH; cl00088 318586011683 FCD domain; Region: FCD; cl11656 318586011684 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 318586011685 active site 318586011686 homotetramer interface [polypeptide binding]; other site 318586011687 homodimer interface [polypeptide binding]; other site 318586011688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586011689 Dehydratase family; Region: ILVD_EDD; cl00340 318586011690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 318586011691 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586011692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586011693 Helix-turn-helix domains; Region: HTH; cl00088 318586011694 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 318586011695 dimerization interface [polypeptide binding]; other site 318586011696 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 318586011697 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318586011698 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 318586011699 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 318586011700 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318586011701 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 318586011702 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 318586011703 nucleoside/Zn binding site; other site 318586011704 dimer interface [polypeptide binding]; other site 318586011705 catalytic motif [active] 318586011706 putative cyanate transporter; Provisional; Region: cynX; PRK09705 318586011707 Domain of unknown function (DUF336); Region: DUF336; cl01249 318586011708 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318586011709 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 318586011710 LysR family transcriptional regulator; Provisional; Region: PRK14997 318586011711 Helix-turn-helix domains; Region: HTH; cl00088 318586011712 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 318586011713 putative effector binding pocket; other site 318586011714 dimerization interface [polypeptide binding]; other site 318586011715 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 318586011716 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 318586011717 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318586011718 FAD binding domain; Region: FAD_binding_4; pfam01565 318586011719 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 318586011720 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 318586011721 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 318586011722 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318586011723 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 318586011724 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 318586011725 XdhC Rossmann domain; Region: XdhC_C; pfam13478 318586011726 guanine deaminase; Provisional; Region: PRK09228 318586011727 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 318586011728 active site 318586011729 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 318586011730 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 318586011731 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 318586011732 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 318586011733 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 318586011734 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 318586011735 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 318586011736 GAF domain; Region: GAF; cl15785 318586011737 Reversibly glycosylated polypeptide; Region: RGP; cl07847 318586011738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586011739 Helix-turn-helix domains; Region: HTH; cl00088 318586011740 Transcriptional regulators [Transcription]; Region: FadR; COG2186 318586011741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586011742 DNA-binding site [nucleotide binding]; DNA binding site 318586011743 FCD domain; Region: FCD; cl11656 318586011744 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 318586011745 Uncharacterized conserved protein [Function unknown]; Region: COG5476 318586011746 MlrC C-terminus; Region: MlrC_C; pfam07171 318586011747 allantoate amidohydrolase; Reviewed; Region: PRK09290 318586011748 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 318586011749 active site 318586011750 metal binding site [ion binding]; metal-binding site 318586011751 dimer interface [polypeptide binding]; other site 318586011752 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586011753 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 318586011754 Walker A/P-loop; other site 318586011755 ATP binding site [chemical binding]; other site 318586011756 Q-loop/lid; other site 318586011757 ABC transporter signature motif; other site 318586011758 Walker B; other site 318586011759 D-loop; other site 318586011760 H-loop/switch region; other site 318586011761 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586011762 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 318586011763 Walker A/P-loop; other site 318586011764 ATP binding site [chemical binding]; other site 318586011765 Q-loop/lid; other site 318586011766 ABC transporter signature motif; other site 318586011767 Walker B; other site 318586011768 D-loop; other site 318586011769 H-loop/switch region; other site 318586011770 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 318586011771 TM-ABC transporter signature motif; other site 318586011772 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 318586011773 TM-ABC transporter signature motif; other site 318586011774 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586011775 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 318586011776 putative ligand binding site [chemical binding]; other site 318586011777 aminotransferase; Validated; Region: PRK07678 318586011778 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 318586011779 inhibitor-cofactor binding pocket; inhibition site 318586011780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586011781 catalytic residue [active] 318586011782 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 318586011783 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586011784 DNA-binding site [nucleotide binding]; DNA binding site 318586011785 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 318586011786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586011787 homodimer interface [polypeptide binding]; other site 318586011788 catalytic residue [active] 318586011789 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318586011790 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 318586011791 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 318586011792 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 318586011793 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586011794 PYR/PP interface [polypeptide binding]; other site 318586011795 dimer interface [polypeptide binding]; other site 318586011796 TPP binding site [chemical binding]; other site 318586011797 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318586011798 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 318586011799 TPP-binding site [chemical binding]; other site 318586011800 choline dehydrogenase; Validated; Region: PRK02106 318586011801 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586011802 metabolite-proton symporter; Region: 2A0106; TIGR00883 318586011803 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 318586011804 putative substrate translocation pore; other site 318586011805 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586011806 Helix-turn-helix domains; Region: HTH; cl00088 318586011807 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 318586011808 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 318586011809 Walker A/P-loop; other site 318586011810 ATP binding site [chemical binding]; other site 318586011811 Q-loop/lid; other site 318586011812 ABC transporter signature motif; other site 318586011813 Walker B; other site 318586011814 D-loop; other site 318586011815 H-loop/switch region; other site 318586011816 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586011817 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 318586011818 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 318586011819 Walker A/P-loop; other site 318586011820 ATP binding site [chemical binding]; other site 318586011821 Q-loop/lid; other site 318586011822 ABC transporter signature motif; other site 318586011823 Walker B; other site 318586011824 D-loop; other site 318586011825 H-loop/switch region; other site 318586011826 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586011827 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 318586011828 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 318586011829 dimer interface [polypeptide binding]; other site 318586011830 conserved gate region; other site 318586011831 putative PBP binding loops; other site 318586011832 ABC-ATPase subunit interface; other site 318586011833 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 318586011834 dimer interface [polypeptide binding]; other site 318586011835 conserved gate region; other site 318586011836 putative PBP binding loops; other site 318586011837 ABC-ATPase subunit interface; other site 318586011838 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_13; cd08517 318586011839 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586011840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586011841 Helix-turn-helix domains; Region: HTH; cl00088 318586011842 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 318586011843 putative substrate binding pocket [chemical binding]; other site 318586011844 dimerization interface [polypeptide binding]; other site 318586011845 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 318586011846 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 318586011847 active site 318586011848 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 318586011849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586011850 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 318586011851 Cell division inhibitor SulA; Region: SulA; cl01880 318586011852 Y-family of DNA polymerases; Region: PolY; cl12025 318586011853 DNA binding site [nucleotide binding] 318586011854 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 318586011855 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 318586011856 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 318586011857 generic binding surface II; other site 318586011858 generic binding surface I; other site 318586011859 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 318586011860 Helix-turn-helix domains; Region: HTH; cl00088 318586011861 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 318586011862 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 318586011863 NADP binding site [chemical binding]; other site 318586011864 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 318586011865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586011866 Family description; Region: UvrD_C_2; cl15862 318586011867 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 318586011868 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 318586011869 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 318586011870 homodimer interface [polypeptide binding]; other site 318586011871 substrate-cofactor binding pocket; other site 318586011872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586011873 catalytic residue [active] 318586011874 Intracellular septation protein A; Region: IspA; cl01098 318586011875 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 318586011876 aconitate hydratase; Validated; Region: PRK09277 318586011877 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 318586011878 substrate binding site [chemical binding]; other site 318586011879 ligand binding site [chemical binding]; other site 318586011880 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 318586011881 substrate binding site [chemical binding]; other site 318586011882 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 318586011883 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 318586011884 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 318586011885 RNA binding surface [nucleotide binding]; other site 318586011886 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 318586011887 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 318586011888 substrate binding site [chemical binding]; other site 318586011889 dimer interface [polypeptide binding]; other site 318586011890 catalytic triad [active] 318586011891 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 318586011892 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 318586011893 Walker A/P-loop; other site 318586011894 ATP binding site [chemical binding]; other site 318586011895 Q-loop/lid; other site 318586011896 ABC transporter signature motif; other site 318586011897 Walker B; other site 318586011898 D-loop; other site 318586011899 H-loop/switch region; other site 318586011900 NIL domain; Region: NIL; cl09633 318586011901 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 318586011902 dimer interface [polypeptide binding]; other site 318586011903 conserved gate region; other site 318586011904 ABC-ATPase subunit interface; other site 318586011905 NMT1-like family; Region: NMT1_2; cl15260 318586011906 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 318586011907 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 318586011908 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 318586011909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586011910 Helix-turn-helix domains; Region: HTH; cl00088 318586011911 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 318586011912 putative effector binding pocket; other site 318586011913 dimerization interface [polypeptide binding]; other site 318586011914 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 318586011915 FAD binding domain; Region: FAD_binding_4; pfam01565 318586011916 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586011917 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318586011918 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318586011919 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318586011920 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318586011921 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 318586011922 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 318586011923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586011924 catalytic residue [active] 318586011925 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 318586011926 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 318586011927 Subunit III/VIIa interface [polypeptide binding]; other site 318586011928 Phospholipid binding site [chemical binding]; other site 318586011929 Subunit I/III interface [polypeptide binding]; other site 318586011930 Subunit III/VIb interface [polypeptide binding]; other site 318586011931 Subunit III/VIa interface; other site 318586011932 Subunit III/Vb interface [polypeptide binding]; other site 318586011933 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 318586011934 UbiA prenyltransferase family; Region: UbiA; cl00337 318586011935 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 318586011936 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 318586011937 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318586011938 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 318586011939 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 318586011940 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 318586011941 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 318586011942 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318586011943 ligand binding site [chemical binding]; other site 318586011944 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 318586011945 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 318586011946 active site 318586011947 phosphorylation site [posttranslational modification] 318586011948 intermolecular recognition site; other site 318586011949 dimerization interface [polypeptide binding]; other site 318586011950 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 318586011951 DNA binding site [nucleotide binding] 318586011952 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 318586011953 PhoU domain; Region: PhoU; pfam01895 318586011954 PhoU domain; Region: PhoU; pfam01895 318586011955 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 318586011956 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 318586011957 Walker A/P-loop; other site 318586011958 ATP binding site [chemical binding]; other site 318586011959 Q-loop/lid; other site 318586011960 ABC transporter signature motif; other site 318586011961 Walker B; other site 318586011962 D-loop; other site 318586011963 H-loop/switch region; other site 318586011964 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 318586011965 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 318586011966 dimer interface [polypeptide binding]; other site 318586011967 conserved gate region; other site 318586011968 putative PBP binding loops; other site 318586011969 ABC-ATPase subunit interface; other site 318586011970 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 318586011971 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 318586011972 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 318586011973 dimer interface [polypeptide binding]; other site 318586011974 conserved gate region; other site 318586011975 putative PBP binding loops; other site 318586011976 ABC-ATPase subunit interface; other site 318586011977 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 318586011978 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 318586011979 Tetramer interface [polypeptide binding]; other site 318586011980 active site 318586011981 FMN-binding site [chemical binding]; other site 318586011982 amino acid transporter; Region: 2A0306; TIGR00909 318586011983 Spore germination protein; Region: Spore_permease; cl15802 318586011984 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 318586011985 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 318586011986 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 318586011987 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 318586011988 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586011989 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586011990 Walker A/P-loop; other site 318586011991 ATP binding site [chemical binding]; other site 318586011992 Q-loop/lid; other site 318586011993 ABC transporter signature motif; other site 318586011994 Walker B; other site 318586011995 D-loop; other site 318586011996 H-loop/switch region; other site 318586011997 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318586011998 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 318586011999 DNA binding residues [nucleotide binding] 318586012000 dimerization interface [polypeptide binding]; other site 318586012001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586012002 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 318586012003 Walker A/P-loop; other site 318586012004 ATP binding site [chemical binding]; other site 318586012005 Q-loop/lid; other site 318586012006 ABC transporter signature motif; other site 318586012007 Walker B; other site 318586012008 D-loop; other site 318586012009 H-loop/switch region; other site 318586012010 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 318586012011 dimer interface [polypeptide binding]; other site 318586012012 conserved gate region; other site 318586012013 putative PBP binding loops; other site 318586012014 ABC-ATPase subunit interface; other site 318586012015 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 318586012016 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 318586012017 dimer interface [polypeptide binding]; other site 318586012018 conserved gate region; other site 318586012019 putative PBP binding loops; other site 318586012020 ABC-ATPase subunit interface; other site 318586012021 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 318586012022 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 318586012023 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 318586012024 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 318586012025 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 318586012026 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39C; cd02419 318586012027 putative active site [active] 318586012028 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318586012029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586012030 Walker A/P-loop; other site 318586012031 ATP binding site [chemical binding]; other site 318586012032 Q-loop/lid; other site 318586012033 ABC transporter signature motif; other site 318586012034 Walker B; other site 318586012035 D-loop; other site 318586012036 H-loop/switch region; other site 318586012037 radical SAM/SPASM domain, FxsB family; Region: SAM_SPASM_FxsB; TIGR04269 318586012038 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 318586012039 FeS/SAM binding site; other site 318586012040 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 318586012041 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 318586012042 dimer interface [polypeptide binding]; other site 318586012043 phosphorylation site [posttranslational modification] 318586012044 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 318586012045 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 318586012046 ATP binding site [chemical binding]; other site 318586012047 Mg2+ binding site [ion binding]; other site 318586012048 G-X-G motif; other site 318586012049 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318586012050 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 318586012051 active site 318586012052 phosphorylation site [posttranslational modification] 318586012053 intermolecular recognition site; other site 318586012054 dimerization interface [polypeptide binding]; other site 318586012055 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318586012056 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 318586012057 active site 318586012058 phosphorylation site [posttranslational modification] 318586012059 intermolecular recognition site; other site 318586012060 dimerization interface [polypeptide binding]; other site 318586012061 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 318586012062 DNA binding residues [nucleotide binding] 318586012063 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 318586012064 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 318586012065 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 318586012066 Na binding site [ion binding]; other site 318586012067 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 318586012068 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 318586012069 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 318586012070 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 318586012071 Isochorismatase family; Region: Isochorismatase; pfam00857 318586012072 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 318586012073 catalytic triad [active] 318586012074 conserved cis-peptide bond; other site 318586012075 Helix-turn-helix domains; Region: HTH; cl00088 318586012076 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 318586012077 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 318586012078 dimerization interface [polypeptide binding]; other site 318586012079 substrate binding pocket [chemical binding]; other site 318586012080 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 318586012081 Sulfatase; Region: Sulfatase; cl10460 318586012082 NMT1/THI5 like; Region: NMT1; pfam09084 318586012083 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 318586012084 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 318586012085 Walker A/P-loop; other site 318586012086 ATP binding site [chemical binding]; other site 318586012087 Q-loop/lid; other site 318586012088 ABC transporter signature motif; other site 318586012089 Walker B; other site 318586012090 D-loop; other site 318586012091 H-loop/switch region; other site 318586012092 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 318586012093 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586012094 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 318586012095 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 318586012096 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 318586012097 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 318586012098 DJ-1 family protein; Region: not_thiJ; TIGR01383 318586012099 conserved cys residue [active] 318586012100 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 318586012101 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 318586012102 conserved cys residue [active] 318586012103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586012104 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318586012105 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 318586012106 ATP binding site [chemical binding]; other site 318586012107 Mg++ binding site [ion binding]; other site 318586012108 motif III; other site 318586012109 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 318586012110 nucleotide binding region [chemical binding]; other site 318586012111 ATP-binding site [chemical binding]; other site 318586012112 DbpA RNA binding domain; Region: DbpA; pfam03880 318586012113 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 318586012114 Helix-turn-helix domains; Region: HTH; cl00088 318586012115 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 318586012116 putative dimerization interface [polypeptide binding]; other site 318586012117 putative substrate binding pocket [chemical binding]; other site 318586012118 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 318586012119 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318586012120 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 318586012121 Helix-turn-helix domains; Region: HTH; cl00088 318586012122 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 318586012123 putative dimerization interface [polypeptide binding]; other site 318586012124 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 318586012125 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 318586012126 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 318586012127 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 318586012128 N-terminal plug; other site 318586012129 ligand-binding site [chemical binding]; other site 318586012130 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 318586012131 catalytic residues [active] 318586012132 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586012133 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 318586012134 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 318586012135 Class I ribonucleotide reductase; Region: RNR_I; cd01679 318586012136 active site 318586012137 dimer interface [polypeptide binding]; other site 318586012138 catalytic residues [active] 318586012139 effector binding site; other site 318586012140 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 318586012141 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 318586012142 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 318586012143 dimer interface [polypeptide binding]; other site 318586012144 putative radical transfer pathway; other site 318586012145 diiron center [ion binding]; other site 318586012146 tyrosyl radical; other site 318586012147 Membrane transport protein; Region: Mem_trans; cl09117 318586012148 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 318586012149 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 318586012150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586012151 homodimer interface [polypeptide binding]; other site 318586012152 catalytic residue [active] 318586012153 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 318586012154 transmembrane helices; other site 318586012155 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 318586012156 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 318586012157 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 318586012158 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 318586012159 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 318586012160 N-terminal plug; other site 318586012161 ligand-binding site [chemical binding]; other site 318586012162 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 318586012163 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 318586012164 intersubunit interface [polypeptide binding]; other site 318586012165 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 318586012166 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 318586012167 ABC-ATPase subunit interface; other site 318586012168 dimer interface [polypeptide binding]; other site 318586012169 putative PBP binding regions; other site 318586012170 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586012171 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 318586012172 Walker A/P-loop; other site 318586012173 ATP binding site [chemical binding]; other site 318586012174 Q-loop/lid; other site 318586012175 ABC transporter signature motif; other site 318586012176 Walker B; other site 318586012177 D-loop; other site 318586012178 H-loop/switch region; other site 318586012179 glycerol kinase; Provisional; Region: glpK; PRK00047 318586012180 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 318586012181 N- and C-terminal domain interface [polypeptide binding]; other site 318586012182 active site 318586012183 MgATP binding site [chemical binding]; other site 318586012184 catalytic site [active] 318586012185 metal binding site [ion binding]; metal-binding site 318586012186 glycerol binding site [chemical binding]; other site 318586012187 homotetramer interface [polypeptide binding]; other site 318586012188 homodimer interface [polypeptide binding]; other site 318586012189 FBP binding site [chemical binding]; other site 318586012190 protein IIAGlc interface [polypeptide binding]; other site 318586012191 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 318586012192 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 318586012193 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 318586012194 dimer interface [polypeptide binding]; other site 318586012195 conserved gate region; other site 318586012196 putative PBP binding loops; other site 318586012197 ABC-ATPase subunit interface; other site 318586012198 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 318586012199 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 318586012200 putative PBP binding loops; other site 318586012201 dimer interface [polypeptide binding]; other site 318586012202 ABC-ATPase subunit interface; other site 318586012203 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 318586012204 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 318586012205 Walker A/P-loop; other site 318586012206 ATP binding site [chemical binding]; other site 318586012207 Q-loop/lid; other site 318586012208 ABC transporter signature motif; other site 318586012209 Walker B; other site 318586012210 D-loop; other site 318586012211 H-loop/switch region; other site 318586012212 TOBE domain; Region: TOBE_2; cl01440 318586012213 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 318586012214 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 318586012215 Walker A/P-loop; other site 318586012216 ATP binding site [chemical binding]; other site 318586012217 Q-loop/lid; other site 318586012218 ABC transporter signature motif; other site 318586012219 Walker B; other site 318586012220 D-loop; other site 318586012221 H-loop/switch region; other site 318586012222 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 318586012223 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 318586012224 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 318586012225 Active Sites [active] 318586012226 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 318586012227 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 318586012228 CysD dimerization site [polypeptide binding]; other site 318586012229 G1 box; other site 318586012230 putative GEF interaction site [polypeptide binding]; other site 318586012231 GTP/Mg2+ binding site [chemical binding]; other site 318586012232 Switch I region; other site 318586012233 G2 box; other site 318586012234 G3 box; other site 318586012235 Switch II region; other site 318586012236 G4 box; other site 318586012237 G5 box; other site 318586012238 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 318586012239 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 318586012240 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 318586012241 ligand-binding site [chemical binding]; other site 318586012242 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 318586012243 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 318586012244 Cysteine-rich domain; Region: CCG; pfam02754 318586012245 Cysteine-rich domain; Region: CCG; pfam02754 318586012246 FAD binding domain; Region: FAD_binding_4; pfam01565 318586012247 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 318586012248 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 318586012249 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 318586012250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586012251 DNA-binding site [nucleotide binding]; DNA binding site 318586012252 FCD domain; Region: FCD; cl11656 318586012253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 318586012254 NMT1-like family; Region: NMT1_2; cl15260 318586012255 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 318586012256 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 318586012257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 318586012258 NMT1-like family; Region: NMT1_2; cl15260 318586012259 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318586012260 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 318586012261 active site 318586012262 phosphorylation site [posttranslational modification] 318586012263 intermolecular recognition site; other site 318586012264 dimerization interface [polypeptide binding]; other site 318586012265 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 318586012266 Walker A motif; other site 318586012267 ATP binding site [chemical binding]; other site 318586012268 Walker B motif; other site 318586012269 arginine finger; other site 318586012270 Helix-turn-helix domains; Region: HTH; cl00088 318586012271 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 318586012272 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 318586012273 dimer interface [polypeptide binding]; other site 318586012274 phosphorylation site [posttranslational modification] 318586012275 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 318586012276 ATP binding site [chemical binding]; other site 318586012277 Mg2+ binding site [ion binding]; other site 318586012278 G-X-G motif; other site 318586012279 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 318586012280 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 318586012281 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 318586012282 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 318586012283 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 318586012284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586012285 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586012286 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586012287 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 318586012288 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586012289 FAD binding site [chemical binding]; other site 318586012290 substrate binding pocket [chemical binding]; other site 318586012291 catalytic base [active] 318586012292 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318586012293 Helix-turn-helix domains; Region: HTH; cl00088 318586012294 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 318586012295 dimerization interface [polypeptide binding]; other site 318586012296 substrate binding pocket [chemical binding]; other site 318586012297 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 318586012298 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 318586012299 inhibitor-cofactor binding pocket; inhibition site 318586012300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586012301 catalytic residue [active] 318586012302 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 318586012303 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 318586012304 non-specific DNA binding site [nucleotide binding]; other site 318586012305 salt bridge; other site 318586012306 sequence-specific DNA binding site [nucleotide binding]; other site 318586012307 Cupin domain; Region: Cupin_2; cl09118 318586012308 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586012309 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318586012310 tetramerization interface [polypeptide binding]; other site 318586012311 NAD(P) binding site [chemical binding]; other site 318586012312 catalytic residues [active] 318586012313 GTP-binding protein LepA; Provisional; Region: PRK05433 318586012314 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 318586012315 G1 box; other site 318586012316 putative GEF interaction site [polypeptide binding]; other site 318586012317 GTP/Mg2+ binding site [chemical binding]; other site 318586012318 Switch I region; other site 318586012319 G2 box; other site 318586012320 G3 box; other site 318586012321 Switch II region; other site 318586012322 G4 box; other site 318586012323 G5 box; other site 318586012324 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 318586012325 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 318586012326 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 318586012327 NAD-dependent deacetylase; Provisional; Region: PRK00481 318586012328 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 318586012329 NAD+ binding site [chemical binding]; other site 318586012330 substrate binding site [chemical binding]; other site 318586012331 Zn binding site [ion binding]; other site 318586012332 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 318586012333 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 318586012334 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 318586012335 active site 318586012336 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586012337 phosphoglucomutase; Region: PLN02307 318586012338 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 318586012339 active site 318586012340 substrate binding site [chemical binding]; other site 318586012341 metal binding site [ion binding]; metal-binding site 318586012342 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 318586012343 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 318586012344 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 318586012345 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 318586012346 glycogen synthase; Provisional; Region: glgA; PRK00654 318586012347 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 318586012348 ADP-binding pocket [chemical binding]; other site 318586012349 homodimer interface [polypeptide binding]; other site 318586012350 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 318586012351 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 318586012352 ligand binding site; other site 318586012353 oligomer interface; other site 318586012354 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 318586012355 dimer interface [polypeptide binding]; other site 318586012356 N-terminal domain interface [polypeptide binding]; other site 318586012357 sulfate 1 binding site; other site 318586012358 glycogen branching enzyme; Provisional; Region: PRK05402 318586012359 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 318586012360 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 318586012361 active site 318586012362 catalytic site [active] 318586012363 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 318586012364 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 318586012365 homodimer interface [polypeptide binding]; other site 318586012366 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 318586012367 active site pocket [active] 318586012368 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 318586012369 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 318586012370 dimerization interface [polypeptide binding]; other site 318586012371 active site 318586012372 L-aspartate oxidase; Provisional; Region: PRK07512 318586012373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012374 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318586012375 Quinolinate synthetase A protein; Region: NadA; cl00420 318586012376 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586012377 Helix-turn-helix domains; Region: HTH; cl00088 318586012378 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586012379 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 318586012380 substrate-cofactor binding pocket; other site 318586012381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586012382 catalytic residue [active] 318586012383 aminodeoxychorismate synthase; Provisional; Region: PRK07508 318586012384 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 318586012385 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318586012386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012387 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 318586012388 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 318586012389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012390 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 318586012391 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 318586012392 conserved cys residue [active] 318586012393 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 318586012394 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 318586012395 Walker A/P-loop; other site 318586012396 ATP binding site [chemical binding]; other site 318586012397 Q-loop/lid; other site 318586012398 ABC transporter signature motif; other site 318586012399 Walker B; other site 318586012400 D-loop; other site 318586012401 H-loop/switch region; other site 318586012402 TOBE domain; Region: TOBE_2; cl01440 318586012403 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 318586012404 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 318586012405 dimer interface [polypeptide binding]; other site 318586012406 conserved gate region; other site 318586012407 putative PBP binding loops; other site 318586012408 ABC-ATPase subunit interface; other site 318586012409 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 318586012410 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 318586012411 dimer interface [polypeptide binding]; other site 318586012412 conserved gate region; other site 318586012413 putative PBP binding loops; other site 318586012414 ABC-ATPase subunit interface; other site 318586012415 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 318586012416 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 318586012417 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 318586012418 Cu(I) binding site [ion binding]; other site 318586012419 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 318586012420 Protein of unknown function (DUF461); Region: DUF461; cl01071 318586012421 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 318586012422 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 318586012423 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 318586012424 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 318586012425 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318586012426 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586012427 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 318586012428 Walker A/P-loop; other site 318586012429 ATP binding site [chemical binding]; other site 318586012430 Q-loop/lid; other site 318586012431 ABC transporter signature motif; other site 318586012432 Walker B; other site 318586012433 D-loop; other site 318586012434 H-loop/switch region; other site 318586012435 TOBE domain; Region: TOBE_2; cl01440 318586012436 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 318586012437 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 318586012438 [4Fe-4S] binding site [ion binding]; other site 318586012439 molybdopterin cofactor binding site; other site 318586012440 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 318586012441 molybdopterin cofactor binding site; other site 318586012442 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318586012443 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 318586012444 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 318586012445 [2Fe-2S] cluster binding site [ion binding]; other site 318586012446 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 318586012447 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586012448 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318586012449 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318586012450 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318586012451 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 318586012452 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 318586012453 putative substrate translocation pore; other site 318586012454 NMT1-like family; Region: NMT1_2; cl15260 318586012455 NMT1-like family; Region: NMT1_2; cl15260 318586012456 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 318586012457 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 318586012458 active site 318586012459 phosphorylation site [posttranslational modification] 318586012460 intermolecular recognition site; other site 318586012461 dimerization interface [polypeptide binding]; other site 318586012462 ANTAR domain; Region: ANTAR; cl04297 318586012463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 318586012464 MOSC domain; Region: MOSC; pfam03473 318586012465 3-alpha domain; Region: 3-alpha; pfam03475 318586012466 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 318586012467 pyridoxal binding site [chemical binding]; other site 318586012468 dimer interface [polypeptide binding]; other site 318586012469 ATP binding site [chemical binding]; other site 318586012470 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 318586012471 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 318586012472 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 318586012473 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 318586012474 RNA binding site [nucleotide binding]; other site 318586012475 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 318586012476 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 318586012477 putative ATP binding site [chemical binding]; other site 318586012478 putative substrate binding site [chemical binding]; other site 318586012479 Nitrogen regulatory protein P-II; Region: P-II; cl00412 318586012480 Nitrogen regulatory protein P-II; Region: P-II; smart00938 318586012481 glutamine synthetase; Provisional; Region: glnA; PRK09469 318586012482 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 318586012483 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318586012484 adenylosuccinate lyase; Provisional; Region: PRK07492 318586012485 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 318586012486 tetramer interface [polypeptide binding]; other site 318586012487 active site 318586012488 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 318586012489 FliG C-terminal domain; Region: FliG_C; pfam01706 318586012490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012491 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 318586012492 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318586012493 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 318586012494 active site 318586012495 substrate binding pocket [chemical binding]; other site 318586012496 dimer interface [polypeptide binding]; other site 318586012497 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318586012498 active site 318586012499 replicative DNA helicase; Provisional; Region: PRK09165 318586012500 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 318586012501 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 318586012502 Walker A motif; other site 318586012503 ATP binding site [chemical binding]; other site 318586012504 Walker B motif; other site 318586012505 DNA binding loops [nucleotide binding] 318586012506 Protein of unknown function, DUF486; Region: DUF486; cl01236 318586012507 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 318586012508 putative substrate translocation pore; other site 318586012509 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 318586012510 non-specific DNA binding site [nucleotide binding]; other site 318586012511 salt bridge; other site 318586012512 sequence-specific DNA binding site [nucleotide binding]; other site 318586012513 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 318586012514 Domain of unknown function (DUF955); Region: DUF955; cl01076 318586012515 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 318586012516 Peptidase family M23; Region: Peptidase_M23; pfam01551 318586012517 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 318586012518 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 318586012519 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 318586012520 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 318586012521 active site 318586012522 (T/H)XGH motif; other site 318586012523 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 318586012524 FOG: CBS domain [General function prediction only]; Region: COG0517 318586012525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586012526 Helix-turn-helix domains; Region: HTH; cl00088 318586012527 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 318586012528 dimerization interface [polypeptide binding]; other site 318586012529 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 318586012530 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586012531 tetrameric interface [polypeptide binding]; other site 318586012532 NAD binding site [chemical binding]; other site 318586012533 catalytic residues [active] 318586012534 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586012535 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586012536 active site 318586012537 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 318586012538 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 318586012539 substrate binding site [chemical binding]; other site 318586012540 oxyanion hole (OAH) forming residues; other site 318586012541 trimer interface [polypeptide binding]; other site 318586012542 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 318586012543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012544 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 318586012545 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 318586012546 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 318586012547 Walker A/P-loop; other site 318586012548 ATP binding site [chemical binding]; other site 318586012549 Q-loop/lid; other site 318586012550 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 318586012551 ABC transporter signature motif; other site 318586012552 Walker B; other site 318586012553 D-loop; other site 318586012554 H-loop/switch region; other site 318586012555 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 318586012556 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 318586012557 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 318586012558 cell division protein FtsZ; Validated; Region: PRK09330 318586012559 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 318586012560 nucleotide binding site [chemical binding]; other site 318586012561 SulA interaction site; other site 318586012562 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 318586012563 Cell division protein FtsA; Region: FtsA; cl11496 318586012564 Cell division protein FtsA; Region: FtsA; cl11496 318586012565 Cell division protein FtsQ; Region: FtsQ; pfam03799 318586012566 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 318586012567 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 318586012568 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586012569 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 318586012570 FAD binding domain; Region: FAD_binding_4; pfam01565 318586012571 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 318586012572 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 318586012573 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 318586012574 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318586012575 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318586012576 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318586012577 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 318586012578 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 318586012579 active site 318586012580 homodimer interface [polypeptide binding]; other site 318586012581 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 318586012582 DoxX; Region: DoxX; cl00976 318586012583 Homoserine O-succinyltransferase; Region: HTS; pfam04204 318586012584 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 318586012585 proposed active site lysine [active] 318586012586 conserved cys residue [active] 318586012587 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 318586012588 Repair protein; Region: Repair_PSII; cl01535 318586012589 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586012590 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 318586012591 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 318586012592 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 318586012593 putative catalytic cysteine [active] 318586012594 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 318586012595 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 318586012596 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586012597 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318586012598 putative acyl-acceptor binding pocket; other site 318586012599 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 318586012600 transmembrane helices; other site 318586012601 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 318586012602 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 318586012603 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 318586012604 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 318586012605 putative active site [active] 318586012606 metal binding site [ion binding]; metal-binding site 318586012607 homodimer binding site [polypeptide binding]; other site 318586012608 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586012609 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586012610 ATP binding site [chemical binding]; other site 318586012611 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 318586012612 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 318586012613 S-adenosylmethionine binding site [chemical binding]; other site 318586012614 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 318586012615 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 318586012616 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 318586012617 DNA binding site [nucleotide binding] 318586012618 catalytic residue [active] 318586012619 H2TH interface [polypeptide binding]; other site 318586012620 putative catalytic residues [active] 318586012621 turnover-facilitating residue; other site 318586012622 intercalation triad [nucleotide binding]; other site 318586012623 8OG recognition residue [nucleotide binding]; other site 318586012624 putative reading head residues; other site 318586012625 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 318586012626 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 318586012627 enoyl-CoA hydratase; Provisional; Region: PRK05862 318586012628 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 318586012629 substrate binding site [chemical binding]; other site 318586012630 oxyanion hole (OAH) forming residues; other site 318586012631 trimer interface [polypeptide binding]; other site 318586012632 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 318586012633 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 318586012634 dimer interface [polypeptide binding]; other site 318586012635 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586012636 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 318586012637 dimer interface [polypeptide binding]; other site 318586012638 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586012639 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318586012640 Helix-turn-helix domains; Region: HTH; cl00088 318586012641 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 318586012642 dimerization interface [polypeptide binding]; other site 318586012643 putative DNA binding site [nucleotide binding]; other site 318586012644 putative Zn2+ binding site [ion binding]; other site 318586012645 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 318586012646 putative hydrophobic ligand binding site [chemical binding]; other site 318586012647 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_14; cd08355 318586012648 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586012649 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586012650 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_10; cd07251 318586012651 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 318586012652 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 318586012653 DNA binding residues [nucleotide binding] 318586012654 dimer interface [polypeptide binding]; other site 318586012655 putative metal binding site [ion binding]; other site 318586012656 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586012657 Helix-turn-helix domains; Region: HTH; cl00088 318586012658 Predicted acetyltransferase [General function prediction only]; Region: COG3153 318586012659 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318586012660 Coenzyme A binding pocket [chemical binding]; other site 318586012661 Methyltransferase domain; Region: Methyltransf_31; pfam13847 318586012662 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 318586012663 S-adenosylmethionine binding site [chemical binding]; other site 318586012664 Helix-turn-helix domains; Region: HTH; cl00088 318586012665 Helix-turn-helix domains; Region: HTH; cl00088 318586012666 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 318586012667 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318586012668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586012669 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 318586012670 Na binding site [ion binding]; other site 318586012671 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 318586012672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012673 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 318586012674 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 318586012675 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 318586012676 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586012677 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 318586012678 DNA binding residues [nucleotide binding] 318586012679 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 318586012680 FecR protein; Region: FecR; pfam04773 318586012681 Secretin and TonB N terminus short domain; Region: STN; cl06624 318586012682 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 318586012683 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 318586012684 N-terminal plug; other site 318586012685 ligand-binding site [chemical binding]; other site 318586012686 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586012687 Integrase core domain; Region: rve; cl01316 318586012688 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 318586012689 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 318586012690 putative active site [active] 318586012691 putative NTP binding site [chemical binding]; other site 318586012692 putative nucleic acid binding site [nucleotide binding]; other site 318586012693 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 318586012694 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 318586012695 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 318586012696 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 318586012697 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 318586012698 putative active site [active] 318586012699 N-formylglutamate amidohydrolase; Region: FGase; cl01522 318586012700 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586012701 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586012702 DctM-like transporters; Region: DctM; pfam06808 318586012703 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586012704 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 318586012705 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318586012706 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586012707 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 318586012708 NAD(P) binding site [chemical binding]; other site 318586012709 catalytic residues [active] 318586012710 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 318586012711 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 318586012712 putative active site [active] 318586012713 metal binding site [ion binding]; metal-binding site 318586012714 acetyl-CoA synthetase; Provisional; Region: PRK00174 318586012715 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 318586012716 AMP-binding enzyme; Region: AMP-binding; cl15778 318586012717 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586012718 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 318586012719 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 318586012720 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 318586012721 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 318586012722 Na binding site [ion binding]; other site 318586012723 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 318586012724 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 318586012725 ligand binding site [chemical binding]; other site 318586012726 flexible hinge region; other site 318586012727 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 318586012728 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318586012729 metal binding triad; other site 318586012730 Response regulator receiver domain; Region: Response_reg; pfam00072 318586012731 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 318586012732 active site 318586012733 phosphorylation site [posttranslational modification] 318586012734 intermolecular recognition site; other site 318586012735 dimerization interface [polypeptide binding]; other site 318586012736 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318586012737 active site 318586012738 catalytic site [active] 318586012739 substrate binding site [chemical binding]; other site 318586012740 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 318586012741 active site 318586012742 catalytic triad [active] 318586012743 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586012744 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 318586012745 DNA binding residues [nucleotide binding] 318586012746 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 318586012747 Glycerate kinase family; Region: Gly_kinase; cl00841 318586012748 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586012749 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 318586012750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586012751 Helix-turn-helix domains; Region: HTH; cl00088 318586012752 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 318586012753 dimerization interface [polypeptide binding]; other site 318586012754 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586012755 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586012756 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 318586012757 EamA-like transporter family; Region: EamA; cl01037 318586012758 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318586012759 EamA-like transporter family; Region: EamA; cl01037 318586012760 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 318586012761 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 318586012762 substrate binding site [chemical binding]; other site 318586012763 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 318586012764 substrate binding site [chemical binding]; other site 318586012765 ligand binding site [chemical binding]; other site 318586012766 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 318586012767 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318586012768 NAD binding site [chemical binding]; other site 318586012769 substrate binding site [chemical binding]; other site 318586012770 putative active site [active] 318586012771 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 318586012772 putative substrate translocation pore; other site 318586012773 EamA-like transporter family; Region: EamA; cl01037 318586012774 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 318586012775 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 318586012776 active site 318586012777 catalytic tetrad [active] 318586012778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586012779 Helix-turn-helix domains; Region: HTH; cl00088 318586012780 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 318586012781 putative effector binding pocket; other site 318586012782 putative dimerization interface [polypeptide binding]; other site 318586012783 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 318586012784 short chain dehydrogenase; Provisional; Region: PRK06523 318586012785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012786 NAD(P) binding site [chemical binding]; other site 318586012787 active site 318586012788 Cupin domain; Region: Cupin_2; cl09118 318586012789 Helix-turn-helix domains; Region: HTH; cl00088 318586012790 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318586012791 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586012792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586012793 Helix-turn-helix domains; Region: HTH; cl00088 318586012794 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 318586012795 dimerization interface [polypeptide binding]; other site 318586012796 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 318586012797 putative hydrophobic ligand binding site [chemical binding]; other site 318586012798 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 318586012799 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586012800 classical (c) SDRs; Region: SDR_c; cd05233 318586012801 NAD(P) binding site [chemical binding]; other site 318586012802 active site 318586012803 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 318586012804 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 318586012805 ring oligomerisation interface [polypeptide binding]; other site 318586012806 ATP/Mg binding site [chemical binding]; other site 318586012807 stacking interactions; other site 318586012808 hinge regions; other site 318586012809 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 318586012810 oligomerisation interface [polypeptide binding]; other site 318586012811 mobile loop; other site 318586012812 roof hairpin; other site 318586012813 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 318586012814 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 318586012815 acyl-CoA synthetase; Validated; Region: PRK08162 318586012816 AMP-binding enzyme; Region: AMP-binding; cl15778 318586012817 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586012818 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 318586012819 active site 318586012820 catalytic residue [active] 318586012821 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 318586012822 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586012823 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 318586012824 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 318586012825 molybdopterin cofactor binding site [chemical binding]; other site 318586012826 substrate binding site [chemical binding]; other site 318586012827 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 318586012828 molybdopterin cofactor binding site; other site 318586012829 hypothetical protein; Validated; Region: PRK07586 318586012830 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586012831 PYR/PP interface [polypeptide binding]; other site 318586012832 dimer interface [polypeptide binding]; other site 318586012833 TPP binding site [chemical binding]; other site 318586012834 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 318586012835 TPP-binding site [chemical binding]; other site 318586012836 dimer interface [polypeptide binding]; other site 318586012837 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 318586012838 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 318586012839 N- and C-terminal domain interface [polypeptide binding]; other site 318586012840 active site 318586012841 MgATP binding site [chemical binding]; other site 318586012842 catalytic site [active] 318586012843 metal binding site [ion binding]; metal-binding site 318586012844 carbohydrate binding site [chemical binding]; other site 318586012845 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 318586012846 intersubunit interface [polypeptide binding]; other site 318586012847 active site 318586012848 Zn2+ binding site [ion binding]; other site 318586012849 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 318586012850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012851 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586012852 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586012853 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 318586012854 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 318586012855 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586012856 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 318586012857 Walker A/P-loop; other site 318586012858 ATP binding site [chemical binding]; other site 318586012859 Q-loop/lid; other site 318586012860 ABC transporter signature motif; other site 318586012861 Walker B; other site 318586012862 D-loop; other site 318586012863 H-loop/switch region; other site 318586012864 TOBE domain; Region: TOBE_2; cl01440 318586012865 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 318586012866 dimer interface [polypeptide binding]; other site 318586012867 conserved gate region; other site 318586012868 ABC-ATPase subunit interface; other site 318586012869 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 318586012870 dimer interface [polypeptide binding]; other site 318586012871 conserved gate region; other site 318586012872 putative PBP binding loops; other site 318586012873 ABC-ATPase subunit interface; other site 318586012874 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318586012875 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 318586012876 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586012877 Helix-turn-helix domains; Region: HTH; cl00088 318586012878 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586012879 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586012880 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 318586012881 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 318586012882 FeS/SAM binding site; other site 318586012883 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 318586012884 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 318586012885 Fe-S cluster binding site [ion binding]; other site 318586012886 active site 318586012887 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318586012888 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 318586012889 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 318586012890 putative active site [active] 318586012891 putative active site [active] 318586012892 catalytic site [active] 318586012893 catalytic site [active] 318586012894 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 318586012895 putative active site [active] 318586012896 catalytic site [active] 318586012897 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318586012898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012899 hydroperoxidase II; Provisional; Region: katE; PRK11249 318586012900 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 318586012901 heme binding pocket [chemical binding]; other site 318586012902 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 318586012903 domain interactions; other site 318586012904 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318586012905 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318586012906 Predicted esterase [General function prediction only]; Region: COG0400 318586012907 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 318586012908 dihydropyrimidinase; Provisional; Region: PRK13404 318586012909 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 318586012910 tetramer interface [polypeptide binding]; other site 318586012911 active site 318586012912 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586012913 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586012914 DNA-binding site [nucleotide binding]; DNA binding site 318586012915 FCD domain; Region: FCD; cl11656 318586012916 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318586012917 Winged helix-turn helix; Region: HTH_29; pfam13551 318586012918 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586012919 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586012920 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586012921 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 318586012922 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 318586012923 active site 318586012924 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 318586012925 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586012926 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 318586012927 dimerization interface [polypeptide binding]; other site 318586012928 putative DNA binding site [nucleotide binding]; other site 318586012929 putative Zn2+ binding site [ion binding]; other site 318586012930 AsnC family; Region: AsnC_trans_reg; pfam01037 318586012931 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 318586012932 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 318586012933 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 318586012934 NAD binding site [chemical binding]; other site 318586012935 Phe binding site; other site 318586012936 Uncharacterized conserved protein [Function unknown]; Region: COG1284 318586012937 FAD dependent oxidoreductase; Region: DAO; pfam01266 318586012938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012939 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 318586012940 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 318586012941 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 318586012942 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 318586012943 TetR family transcriptional regulator; Provisional; Region: PRK14996 318586012944 Helix-turn-helix domains; Region: HTH; cl00088 318586012945 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586012946 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 318586012947 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318586012948 Uncharacterized conserved protein [Function unknown]; Region: COG5476 318586012949 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 318586012950 MlrC C-terminus; Region: MlrC_C; pfam07171 318586012951 multifunctional aminopeptidase A; Provisional; Region: PRK00913 318586012952 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 318586012953 interface (dimer of trimers) [polypeptide binding]; other site 318586012954 Substrate-binding/catalytic site; other site 318586012955 Zn-binding sites [ion binding]; other site 318586012956 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 318586012957 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318586012958 metal binding site [ion binding]; metal-binding site 318586012959 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 318586012960 ornithine cyclodeaminase; Validated; Region: PRK07589 318586012961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586012962 phenol 2-monooxygenase; Provisional; Region: PRK08294 318586012963 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 318586012964 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 318586012965 Helix-turn-helix domains; Region: HTH; cl00088 318586012966 AsnC family; Region: AsnC_trans_reg; pfam01037 318586012967 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586012968 Helix-turn-helix domains; Region: HTH; cl00088 318586012969 Putative cyclase; Region: Cyclase; cl00814 318586012970 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 318586012971 putative substrate translocation pore; other site 318586012972 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 318586012973 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 318586012974 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 318586012975 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318586012976 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 318586012977 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 318586012978 dimer interface [polypeptide binding]; other site 318586012979 conserved gate region; other site 318586012980 putative PBP binding loops; other site 318586012981 ABC-ATPase subunit interface; other site 318586012982 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 318586012983 dimer interface [polypeptide binding]; other site 318586012984 conserved gate region; other site 318586012985 putative PBP binding loops; other site 318586012986 ABC-ATPase subunit interface; other site 318586012987 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586012988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586012989 Walker A/P-loop; other site 318586012990 ATP binding site [chemical binding]; other site 318586012991 Q-loop/lid; other site 318586012992 ABC transporter signature motif; other site 318586012993 Walker B; other site 318586012994 D-loop; other site 318586012995 H-loop/switch region; other site 318586012996 TOBE domain; Region: TOBE_2; cl01440 318586012997 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 318586012998 active site 318586012999 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 318586013000 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 318586013001 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 318586013002 putative active site [active] 318586013003 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586013004 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 318586013005 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 318586013006 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 318586013007 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 318586013008 dimer interface [polypeptide binding]; other site 318586013009 phosphorylation site [posttranslational modification] 318586013010 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 318586013011 ATP binding site [chemical binding]; other site 318586013012 Mg2+ binding site [ion binding]; other site 318586013013 G-X-G motif; other site 318586013014 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318586013015 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 318586013016 active site 318586013017 phosphorylation site [posttranslational modification] 318586013018 intermolecular recognition site; other site 318586013019 dimerization interface [polypeptide binding]; other site 318586013020 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 318586013021 ATP binding site [chemical binding]; other site 318586013022 Walker A motif; other site 318586013023 Walker B motif; other site 318586013024 arginine finger; other site 318586013025 Helix-turn-helix domains; Region: HTH; cl00088 318586013026 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 318586013027 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318586013028 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 318586013029 dimer interface [polypeptide binding]; other site 318586013030 conserved gate region; other site 318586013031 putative PBP binding loops; other site 318586013032 ABC-ATPase subunit interface; other site 318586013033 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 318586013034 dimer interface [polypeptide binding]; other site 318586013035 conserved gate region; other site 318586013036 putative PBP binding loops; other site 318586013037 ABC-ATPase subunit interface; other site 318586013038 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586013039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586013040 Walker A/P-loop; other site 318586013041 ATP binding site [chemical binding]; other site 318586013042 Q-loop/lid; other site 318586013043 ABC transporter signature motif; other site 318586013044 Walker B; other site 318586013045 D-loop; other site 318586013046 H-loop/switch region; other site 318586013047 TOBE domain; Region: TOBE_2; cl01440 318586013048 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 318586013049 catalytic core [active] 318586013050 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 318586013051 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318586013052 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 318586013053 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 318586013054 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586013055 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 318586013056 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 318586013057 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 318586013058 shikimate binding site; other site 318586013059 NAD(P) binding site [chemical binding]; other site 318586013060 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 318586013061 dimer interface [polypeptide binding]; other site 318586013062 NADP binding site [chemical binding]; other site 318586013063 catalytic residues [active] 318586013064 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 318586013065 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 318586013066 inhibitor site; inhibition site 318586013067 active site 318586013068 dimer interface [polypeptide binding]; other site 318586013069 catalytic residue [active] 318586013070 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 318586013071 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586013072 substrate binding pocket [chemical binding]; other site 318586013073 membrane-bound complex binding site; other site 318586013074 hinge residues; other site 318586013075 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586013076 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 318586013077 Walker A/P-loop; other site 318586013078 ATP binding site [chemical binding]; other site 318586013079 Q-loop/lid; other site 318586013080 ABC transporter signature motif; other site 318586013081 Walker B; other site 318586013082 D-loop; other site 318586013083 H-loop/switch region; other site 318586013084 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 318586013085 dimer interface [polypeptide binding]; other site 318586013086 conserved gate region; other site 318586013087 putative PBP binding loops; other site 318586013088 ABC-ATPase subunit interface; other site 318586013089 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586013090 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 318586013091 dimer interface [polypeptide binding]; other site 318586013092 conserved gate region; other site 318586013093 putative PBP binding loops; other site 318586013094 ABC-ATPase subunit interface; other site 318586013095 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 318586013096 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 318586013097 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 318586013098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586013099 DNA-binding site [nucleotide binding]; DNA binding site 318586013100 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586013101 FCD domain; Region: FCD; cl11656 318586013102 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 318586013103 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 318586013104 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 318586013105 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 318586013106 putative active site [active] 318586013107 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 318586013108 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 318586013109 active site 318586013110 substrate binding site [chemical binding]; other site 318586013111 FMN binding site [chemical binding]; other site 318586013112 putative catalytic residues [active] 318586013113 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 318586013114 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 318586013115 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 318586013116 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 318586013117 active site 318586013118 homopentamer interface [polypeptide binding]; other site 318586013119 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 318586013120 putative active site [active] 318586013121 putative catalytic site [active] 318586013122 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586013123 Helix-turn-helix domains; Region: HTH; cl00088 318586013124 PAS fold; Region: PAS; pfam00989 318586013125 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 318586013126 putative active site [active] 318586013127 heme pocket [chemical binding]; other site 318586013128 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 318586013129 DNA binding residues [nucleotide binding] 318586013130 dimerization interface [polypeptide binding]; other site 318586013131 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 318586013132 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 318586013133 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 318586013134 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 318586013135 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 318586013136 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 318586013137 Walker A/P-loop; other site 318586013138 ATP binding site [chemical binding]; other site 318586013139 Q-loop/lid; other site 318586013140 ABC transporter signature motif; other site 318586013141 Walker B; other site 318586013142 D-loop; other site 318586013143 H-loop/switch region; other site 318586013144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586013145 Walker A/P-loop; other site 318586013146 ATP binding site [chemical binding]; other site 318586013147 Q-loop/lid; other site 318586013148 ABC transporter signature motif; other site 318586013149 Walker B; other site 318586013150 D-loop; other site 318586013151 H-loop/switch region; other site 318586013152 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 318586013153 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586013154 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 318586013155 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586013156 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 318586013157 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 318586013158 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 318586013159 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 318586013160 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318586013161 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 318586013162 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 318586013163 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 318586013164 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318586013165 Protein export membrane protein; Region: SecD_SecF; cl14618 318586013166 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318586013167 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 318586013168 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 318586013169 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 318586013170 Cytochrome C'; Region: Cytochrom_C_2; cl01610 318586013171 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 318586013172 dimerization interface [polypeptide binding]; other site 318586013173 putative DNA binding site [nucleotide binding]; other site 318586013174 putative Zn2+ binding site [ion binding]; other site 318586013175 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 318586013176 Predicted transporter component [General function prediction only]; Region: COG2391 318586013177 Sulphur transport; Region: Sulf_transp; cl01018 318586013178 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 318586013179 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 318586013180 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 318586013181 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318586013182 Ribbon-helix-helix domain; Region: RHH_4; cl01775 318586013183 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318586013184 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 318586013185 dimer interface [polypeptide binding]; other site 318586013186 active site 318586013187 metal binding site [ion binding]; metal-binding site 318586013188 glutathione binding site [chemical binding]; other site 318586013189 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 318586013190 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 318586013191 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318586013192 Septum formation topological specificity factor MinE; Region: MinE; cl00538 318586013193 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 318586013194 Switch I; other site 318586013195 Switch II; other site 318586013196 septum formation inhibitor; Reviewed; Region: minC; PRK05177 318586013197 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 318586013198 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 318586013199 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 318586013200 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586013201 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586013202 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586013203 DctM-like transporters; Region: DctM; pfam06808 318586013204 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586013205 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 318586013206 NapD protein; Region: NapD; cl01163 318586013207 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 318586013208 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 318586013209 [4Fe-4S] binding site [ion binding]; other site 318586013210 molybdopterin cofactor binding site; other site 318586013211 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 318586013212 molybdopterin cofactor binding site; other site 318586013213 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 318586013214 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 318586013215 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318586013216 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 318586013217 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318586013218 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 318586013219 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 318586013220 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586013221 Helix-turn-helix domains; Region: HTH; cl00088 318586013222 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 318586013223 dimerization interface [polypeptide binding]; other site 318586013224 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 318586013225 DoxX; Region: DoxX; cl00976 318586013226 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318586013227 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 318586013228 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318586013229 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 318586013230 MauM/NapG family ferredoxin-type protein; Region: mauM_napG; TIGR00397 318586013231 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 318586013232 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 318586013233 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318586013234 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 318586013235 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 318586013236 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 318586013237 PhnA protein; Region: PhnA; pfam03831 318586013238 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 318586013239 active site 318586013240 phosphorylation site [posttranslational modification] 318586013241 intermolecular recognition site; other site 318586013242 dimerization interface [polypeptide binding]; other site 318586013243 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 318586013244 DNA binding residues [nucleotide binding] 318586013245 dimerization interface [polypeptide binding]; other site 318586013246 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 318586013247 dimer interface [polypeptide binding]; other site 318586013248 phosphorylation site [posttranslational modification] 318586013249 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 318586013250 ATP binding site [chemical binding]; other site 318586013251 Mg2+ binding site [ion binding]; other site 318586013252 G-X-G motif; other site 318586013253 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 318586013254 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318586013255 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 318586013256 dimer interface [polypeptide binding]; other site 318586013257 conserved gate region; other site 318586013258 ABC-ATPase subunit interface; other site 318586013259 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 318586013260 dimer interface [polypeptide binding]; other site 318586013261 conserved gate region; other site 318586013262 putative PBP binding loops; other site 318586013263 ABC-ATPase subunit interface; other site 318586013264 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 318586013265 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 318586013266 Walker A/P-loop; other site 318586013267 ATP binding site [chemical binding]; other site 318586013268 Q-loop/lid; other site 318586013269 ABC transporter signature motif; other site 318586013270 Walker B; other site 318586013271 D-loop; other site 318586013272 H-loop/switch region; other site 318586013273 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 318586013274 NMT1-like family; Region: NMT1_2; cl15260 318586013275 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318586013276 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 318586013277 Helix-turn-helix domains; Region: HTH; cl00088 318586013278 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 318586013279 dimerization interface [polypeptide binding]; other site 318586013280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013281 FAD dependent oxidoreductase; Region: DAO; pfam01266 318586013282 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586013283 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586013284 NAD(P) binding site [chemical binding]; other site 318586013285 catalytic residues [active] 318586013286 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 318586013287 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 318586013288 inhibitor site; inhibition site 318586013289 active site 318586013290 dimer interface [polypeptide binding]; other site 318586013291 catalytic residue [active] 318586013292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 318586013293 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 318586013294 Putative glucoamylase; Region: Glycoamylase; pfam10091 318586013295 Putative carbohydrate binding domain; Region: CBM_X; cl05621 318586013296 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 318586013297 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 318586013298 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 318586013299 Putative carbohydrate binding domain; Region: CBM_X; cl05621 318586013300 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 318586013301 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 318586013302 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586013303 Helix-turn-helix domains; Region: HTH; cl00088 318586013304 AsnC family; Region: AsnC_trans_reg; pfam01037 318586013305 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 318586013306 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 318586013307 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 318586013308 tetramer interface [polypeptide binding]; other site 318586013309 TPP-binding site [chemical binding]; other site 318586013310 heterodimer interface [polypeptide binding]; other site 318586013311 phosphorylation loop region [posttranslational modification] 318586013312 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 318586013313 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 318586013314 alpha subunit interface [polypeptide binding]; other site 318586013315 TPP binding site [chemical binding]; other site 318586013316 heterodimer interface [polypeptide binding]; other site 318586013317 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318586013318 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 318586013319 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 318586013320 E3 interaction surface; other site 318586013321 lipoyl attachment site [posttranslational modification]; other site 318586013322 e3 binding domain; Region: E3_binding; pfam02817 318586013323 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 318586013324 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 318586013325 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318586013326 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318586013327 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 318586013328 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 318586013329 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318586013330 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 318586013331 active site 318586013332 phosphorylation site [posttranslational modification] 318586013333 intermolecular recognition site; other site 318586013334 dimerization interface [polypeptide binding]; other site 318586013335 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 318586013336 Walker A motif; other site 318586013337 ATP binding site [chemical binding]; other site 318586013338 Walker B motif; other site 318586013339 arginine finger; other site 318586013340 Helix-turn-helix domains; Region: HTH; cl00088 318586013341 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 318586013342 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 318586013343 dimer interface [polypeptide binding]; other site 318586013344 phosphorylation site [posttranslational modification] 318586013345 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 318586013346 ATP binding site [chemical binding]; other site 318586013347 Mg2+ binding site [ion binding]; other site 318586013348 G-X-G motif; other site 318586013349 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 318586013350 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318586013351 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318586013352 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586013353 DNA binding site [nucleotide binding] 318586013354 domain linker motif; other site 318586013355 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 318586013356 dimerization interface [polypeptide binding]; other site 318586013357 ligand binding site [chemical binding]; other site 318586013358 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 318586013359 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 318586013360 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 318586013361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013362 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 318586013363 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 318586013364 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 318586013365 Walker A/P-loop; other site 318586013366 ATP binding site [chemical binding]; other site 318586013367 Q-loop/lid; other site 318586013368 ABC transporter signature motif; other site 318586013369 Walker B; other site 318586013370 D-loop; other site 318586013371 H-loop/switch region; other site 318586013372 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 318586013373 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 318586013374 TM-ABC transporter signature motif; other site 318586013375 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 318586013376 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 318586013377 putative ligand binding site [chemical binding]; other site 318586013378 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 318586013379 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586013380 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 318586013381 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586013382 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 318586013383 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 318586013384 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 318586013385 active site 318586013386 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 318586013387 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 318586013388 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586013389 active site 318586013390 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 318586013391 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586013392 Walker A/P-loop; other site 318586013393 ATP binding site [chemical binding]; other site 318586013394 Q-loop/lid; other site 318586013395 ABC transporter signature motif; other site 318586013396 Walker B; other site 318586013397 D-loop; other site 318586013398 H-loop/switch region; other site 318586013399 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 318586013400 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 318586013401 Walker A/P-loop; other site 318586013402 ATP binding site [chemical binding]; other site 318586013403 Q-loop/lid; other site 318586013404 ABC transporter signature motif; other site 318586013405 Walker B; other site 318586013406 D-loop; other site 318586013407 H-loop/switch region; other site 318586013408 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586013409 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 318586013410 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 318586013411 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 318586013412 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 318586013413 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586013414 DNA-binding site [nucleotide binding]; DNA binding site 318586013415 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 318586013416 UTRA domain; Region: UTRA; cl01230 318586013417 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 318586013418 dimer interface [polypeptide binding]; other site 318586013419 conserved gate region; other site 318586013420 ABC-ATPase subunit interface; other site 318586013421 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 318586013422 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 318586013423 dimer interface [polypeptide binding]; other site 318586013424 conserved gate region; other site 318586013425 putative PBP binding loops; other site 318586013426 ABC-ATPase subunit interface; other site 318586013427 NMT1-like family; Region: NMT1_2; cl15260 318586013428 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318586013429 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 318586013430 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 318586013431 Walker A/P-loop; other site 318586013432 ATP binding site [chemical binding]; other site 318586013433 Q-loop/lid; other site 318586013434 ABC transporter signature motif; other site 318586013435 Walker B; other site 318586013436 D-loop; other site 318586013437 H-loop/switch region; other site 318586013438 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586013439 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 318586013440 NeuB family; Region: NeuB; cl00496 318586013441 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318586013442 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 318586013443 substrate binding site [chemical binding]; other site 318586013444 oxyanion hole (OAH) forming residues; other site 318586013445 trimer interface [polypeptide binding]; other site 318586013446 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 318586013447 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586013448 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 318586013449 Walker A/P-loop; other site 318586013450 ATP binding site [chemical binding]; other site 318586013451 Q-loop/lid; other site 318586013452 ABC transporter signature motif; other site 318586013453 Walker B; other site 318586013454 D-loop; other site 318586013455 H-loop/switch region; other site 318586013456 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586013457 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 318586013458 Walker A/P-loop; other site 318586013459 ATP binding site [chemical binding]; other site 318586013460 Q-loop/lid; other site 318586013461 ABC transporter signature motif; other site 318586013462 Walker B; other site 318586013463 D-loop; other site 318586013464 H-loop/switch region; other site 318586013465 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 318586013466 TM-ABC transporter signature motif; other site 318586013467 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 318586013468 TM-ABC transporter signature motif; other site 318586013469 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586013470 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 318586013471 putative ligand binding site [chemical binding]; other site 318586013472 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586013473 NAD(P) binding site [chemical binding]; other site 318586013474 catalytic residues [active] 318586013475 enoyl-CoA hydratase; Provisional; Region: PRK08140 318586013476 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 318586013477 substrate binding site [chemical binding]; other site 318586013478 oxyanion hole (OAH) forming residues; other site 318586013479 trimer interface [polypeptide binding]; other site 318586013480 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 318586013481 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 318586013482 CoenzymeA binding site [chemical binding]; other site 318586013483 subunit interaction site [polypeptide binding]; other site 318586013484 PHB binding site; other site 318586013485 AMP-binding enzyme; Region: AMP-binding; cl15778 318586013486 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 318586013487 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318586013488 Helix-turn-helix domains; Region: HTH; cl00088 318586013489 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 318586013490 active site 318586013491 NTP binding site [chemical binding]; other site 318586013492 metal binding triad [ion binding]; metal-binding site 318586013493 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 318586013494 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 318586013495 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 318586013496 substrate binding site [chemical binding]; other site 318586013497 dimer interface [polypeptide binding]; other site 318586013498 NADP binding site [chemical binding]; other site 318586013499 catalytic residues [active] 318586013500 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 318586013501 substrate binding site [chemical binding]; other site 318586013502 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 318586013503 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 318586013504 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 318586013505 FAD binding pocket [chemical binding]; other site 318586013506 FAD binding motif [chemical binding]; other site 318586013507 phosphate binding motif [ion binding]; other site 318586013508 beta-alpha-beta structure motif; other site 318586013509 NAD(p) ribose binding residues [chemical binding]; other site 318586013510 NAD binding pocket [chemical binding]; other site 318586013511 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 318586013512 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 318586013513 catalytic loop [active] 318586013514 iron binding site [ion binding]; other site 318586013515 Domain of unknown function DUF59; Region: DUF59; cl00941 318586013516 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 318586013517 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 318586013518 Phenylacetic acid degradation B; Region: PaaB; cl01371 318586013519 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 318586013520 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 318586013521 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 318586013522 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 318586013523 dimer interface [polypeptide binding]; other site 318586013524 active site 318586013525 PaaX-like protein; Region: PaaX; pfam07848 318586013526 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 318586013527 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 318586013528 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 318586013529 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 318586013530 Penicillin G acylase (PGA) is the key enzyme in the industrial production of beta-lactam antibiotics. PGA hydrolyzes the side chain of penicillin G and related beta-lactam antibiotics releasing 6-amino penicillanic acid (6-APA), a building block in the...; Region: Ntn_PGA; cd03748 318586013531 active site 318586013532 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586013533 DctM-like transporters; Region: DctM; pfam06808 318586013534 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586013535 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586013536 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586013537 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586013538 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 318586013539 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 318586013540 active site 318586013541 acyl-CoA synthetase; Validated; Region: PRK07470 318586013542 AMP-binding enzyme; Region: AMP-binding; cl15778 318586013543 AMP-binding enzyme; Region: AMP-binding; cl15778 318586013544 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cl00720 318586013545 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586013546 classical (c) SDRs; Region: SDR_c; cd05233 318586013547 NAD(P) binding site [chemical binding]; other site 318586013548 active site 318586013549 Predicted membrane protein [Function unknown]; Region: COG3174 318586013550 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 318586013551 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 318586013552 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 318586013553 active site 318586013554 substrate binding site [chemical binding]; other site 318586013555 metal binding site [ion binding]; metal-binding site 318586013556 FtsH Extracellular; Region: FtsH_ext; pfam06480 318586013557 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 318586013558 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 318586013559 Walker A motif; other site 318586013560 ATP binding site [chemical binding]; other site 318586013561 Walker B motif; other site 318586013562 arginine finger; other site 318586013563 Peptidase family M41; Region: Peptidase_M41; pfam01434 318586013564 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586013565 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 318586013566 N-terminal plug; other site 318586013567 ligand-binding site [chemical binding]; other site 318586013568 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318586013569 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 318586013570 Walker A/P-loop; other site 318586013571 ATP binding site [chemical binding]; other site 318586013572 Q-loop/lid; other site 318586013573 ABC transporter signature motif; other site 318586013574 Walker B; other site 318586013575 D-loop; other site 318586013576 H-loop/switch region; other site 318586013577 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 318586013578 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 318586013579 putative ligand binding residues [chemical binding]; other site 318586013580 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 318586013581 ABC-ATPase subunit interface; other site 318586013582 dimer interface [polypeptide binding]; other site 318586013583 putative PBP binding regions; other site 318586013584 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318586013585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586013586 DNA-binding site [nucleotide binding]; DNA binding site 318586013587 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 318586013588 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 318586013589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586013590 homodimer interface [polypeptide binding]; other site 318586013591 catalytic residue [active] 318586013592 Cupin domain; Region: Cupin_2; cl09118 318586013593 Helix-turn-helix domain; Region: HTH_18; pfam12833 318586013594 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 318586013595 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318586013596 putative substrate translocation pore; other site 318586013597 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 318586013598 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586013599 DNA-binding site [nucleotide binding]; DNA binding site 318586013600 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 318586013601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586013602 homodimer interface [polypeptide binding]; other site 318586013603 catalytic residue [active] 318586013604 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586013605 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 318586013606 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 318586013607 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 318586013608 putative NAD(P) binding site [chemical binding]; other site 318586013609 catalytic Zn binding site [ion binding]; other site 318586013610 sorbitol dehydrogenase; Provisional; Region: PRK07067 318586013611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013612 NAD(P) binding site [chemical binding]; other site 318586013613 active site 318586013614 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 318586013615 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 318586013616 Walker A/P-loop; other site 318586013617 ATP binding site [chemical binding]; other site 318586013618 Q-loop/lid; other site 318586013619 ABC transporter signature motif; other site 318586013620 Walker B; other site 318586013621 D-loop; other site 318586013622 H-loop/switch region; other site 318586013623 TOBE domain; Region: TOBE_2; cl01440 318586013624 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 318586013625 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 318586013626 dimer interface [polypeptide binding]; other site 318586013627 conserved gate region; other site 318586013628 putative PBP binding loops; other site 318586013629 ABC-ATPase subunit interface; other site 318586013630 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 318586013631 dimer interface [polypeptide binding]; other site 318586013632 conserved gate region; other site 318586013633 putative PBP binding loops; other site 318586013634 ABC-ATPase subunit interface; other site 318586013635 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 318586013636 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 318586013637 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318586013638 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586013639 DNA binding site [nucleotide binding] 318586013640 domain linker motif; other site 318586013641 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 318586013642 dimerization interface [polypeptide binding]; other site 318586013643 ligand binding site [chemical binding]; other site 318586013644 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 318586013645 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318586013646 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 318586013647 substrate binding site [chemical binding]; other site 318586013648 ATP binding site [chemical binding]; other site 318586013649 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 318586013650 TM-ABC transporter signature motif; other site 318586013651 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 318586013652 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 318586013653 Walker A/P-loop; other site 318586013654 ATP binding site [chemical binding]; other site 318586013655 Q-loop/lid; other site 318586013656 ABC transporter signature motif; other site 318586013657 Walker B; other site 318586013658 D-loop; other site 318586013659 H-loop/switch region; other site 318586013660 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 318586013661 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_12; cd06322 318586013662 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 318586013663 putative ligand binding site [chemical binding]; other site 318586013664 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 318586013665 substrate pocket [chemical binding]; other site 318586013666 active site 318586013667 dimer interface [polypeptide binding]; other site 318586013668 proteolytic cleavage site; other site 318586013669 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318586013670 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 318586013671 substrate binding site [chemical binding]; other site 318586013672 Protein of unknown function (DUF521); Region: DUF521; pfam04412 318586013673 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 318586013674 substrate binding site [chemical binding]; other site 318586013675 ligand binding site [chemical binding]; other site 318586013676 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 318586013677 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318586013678 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586013679 DctM-like transporters; Region: DctM; pfam06808 318586013680 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318586013681 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586013682 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 318586013683 Proline racemase; Region: Pro_racemase; pfam05544 318586013684 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 318586013685 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586013686 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 318586013687 Walker A/P-loop; other site 318586013688 ATP binding site [chemical binding]; other site 318586013689 Q-loop/lid; other site 318586013690 ABC transporter signature motif; other site 318586013691 Walker B; other site 318586013692 D-loop; other site 318586013693 H-loop/switch region; other site 318586013694 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586013695 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586013696 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 318586013697 dimer interface [polypeptide binding]; other site 318586013698 conserved gate region; other site 318586013699 putative PBP binding loops; other site 318586013700 ABC-ATPase subunit interface; other site 318586013701 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586013702 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 318586013703 dimer interface [polypeptide binding]; other site 318586013704 conserved gate region; other site 318586013705 putative PBP binding loops; other site 318586013706 ABC-ATPase subunit interface; other site 318586013707 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586013708 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 318586013709 substrate binding pocket [chemical binding]; other site 318586013710 membrane-bound complex binding site; other site 318586013711 hinge residues; other site 318586013712 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 318586013713 dimer interface [polypeptide binding]; other site 318586013714 NADP binding site [chemical binding]; other site 318586013715 catalytic residues [active] 318586013716 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 318586013717 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 318586013718 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 318586013719 inhibitor site; inhibition site 318586013720 active site 318586013721 dimer interface [polypeptide binding]; other site 318586013722 catalytic residue [active] 318586013723 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586013724 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586013725 DNA-binding site [nucleotide binding]; DNA binding site 318586013726 FCD domain; Region: FCD; cl11656 318586013727 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 318586013728 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 318586013729 non-specific DNA binding site [nucleotide binding]; other site 318586013730 salt bridge; other site 318586013731 sequence-specific DNA binding site [nucleotide binding]; other site 318586013732 Cupin domain; Region: Cupin_2; cl09118 318586013733 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 318586013734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013735 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 318586013736 FAD binding domain; Region: FAD_binding_4; pfam01565 318586013737 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586013738 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 318586013739 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586013740 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586013741 Walker A/P-loop; other site 318586013742 ATP binding site [chemical binding]; other site 318586013743 Q-loop/lid; other site 318586013744 ABC transporter signature motif; other site 318586013745 Walker B; other site 318586013746 D-loop; other site 318586013747 H-loop/switch region; other site 318586013748 TOBE domain; Region: TOBE_2; cl01440 318586013749 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 318586013750 dimer interface [polypeptide binding]; other site 318586013751 conserved gate region; other site 318586013752 putative PBP binding loops; other site 318586013753 ABC-ATPase subunit interface; other site 318586013754 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 318586013755 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 318586013756 dimer interface [polypeptide binding]; other site 318586013757 conserved gate region; other site 318586013758 putative PBP binding loops; other site 318586013759 ABC-ATPase subunit interface; other site 318586013760 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 318586013761 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 318586013762 catalytic residue [active] 318586013763 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 318586013764 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 318586013765 phosphate binding site [ion binding]; other site 318586013766 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 318586013767 active site 318586013768 catalytic residues [active] 318586013769 metal binding site [ion binding]; metal-binding site 318586013770 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 318586013771 CoA-transferase family III; Region: CoA_transf_3; pfam02515 318586013772 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586013773 Helix-turn-helix domains; Region: HTH; cl00088 318586013774 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 318586013775 dimerization interface [polypeptide binding]; other site 318586013776 NMT1-like family; Region: NMT1_2; cl15260 318586013777 NMT1/THI5 like; Region: NMT1; pfam09084 318586013778 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 318586013779 dimer interface [polypeptide binding]; other site 318586013780 conserved gate region; other site 318586013781 putative PBP binding loops; other site 318586013782 ABC-ATPase subunit interface; other site 318586013783 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 318586013784 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 318586013785 Walker A/P-loop; other site 318586013786 ATP binding site [chemical binding]; other site 318586013787 Q-loop/lid; other site 318586013788 ABC transporter signature motif; other site 318586013789 Walker B; other site 318586013790 D-loop; other site 318586013791 H-loop/switch region; other site 318586013792 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 318586013793 dimer interface [polypeptide binding]; other site 318586013794 conserved gate region; other site 318586013795 ABC-ATPase subunit interface; other site 318586013796 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 318586013797 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 318586013798 Walker A/P-loop; other site 318586013799 ATP binding site [chemical binding]; other site 318586013800 Q-loop/lid; other site 318586013801 ABC transporter signature motif; other site 318586013802 Walker B; other site 318586013803 D-loop; other site 318586013804 H-loop/switch region; other site 318586013805 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 318586013806 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 318586013807 NMT1-like family; Region: NMT1_2; cl15260 318586013808 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318586013809 Predicted amidohydrolase [General function prediction only]; Region: COG0388 318586013810 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 318586013811 putative active site [active] 318586013812 catalytic triad [active] 318586013813 putative dimer interface [polypeptide binding]; other site 318586013814 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586013815 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 318586013816 active site 318586013817 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 318586013818 AMP-binding enzyme; Region: AMP-binding; cl15778 318586013819 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586013820 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 318586013821 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 318586013822 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 318586013823 conserved cys residue [active] 318586013824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013825 FAD dependent oxidoreductase; Region: DAO; pfam01266 318586013826 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 318586013827 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318586013828 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 318586013829 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 318586013830 FAD binding pocket [chemical binding]; other site 318586013831 FAD binding motif [chemical binding]; other site 318586013832 phosphate binding motif [ion binding]; other site 318586013833 beta-alpha-beta structure motif; other site 318586013834 NAD binding pocket [chemical binding]; other site 318586013835 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 318586013836 catalytic loop [active] 318586013837 iron binding site [ion binding]; other site 318586013838 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 318586013839 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 318586013840 [2Fe-2S] cluster binding site [ion binding]; other site 318586013841 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 318586013842 putative alpha subunit interface [polypeptide binding]; other site 318586013843 putative active site [active] 318586013844 putative substrate binding site [chemical binding]; other site 318586013845 Fe binding site [ion binding]; other site 318586013846 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586013847 Uncharacterized conserved protein [Function unknown]; Region: COG2128 318586013848 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586013849 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 318586013850 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318586013851 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 318586013852 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 318586013853 Walker A/P-loop; other site 318586013854 ATP binding site [chemical binding]; other site 318586013855 Q-loop/lid; other site 318586013856 ABC transporter signature motif; other site 318586013857 Walker B; other site 318586013858 D-loop; other site 318586013859 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 318586013860 dimer interface [polypeptide binding]; other site 318586013861 conserved gate region; other site 318586013862 putative PBP binding loops; other site 318586013863 ABC-ATPase subunit interface; other site 318586013864 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 318586013865 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 318586013866 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 318586013867 putative active site [active] 318586013868 putative substrate binding site [chemical binding]; other site 318586013869 putative cosubstrate binding site; other site 318586013870 catalytic site [active] 318586013871 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 318586013872 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 318586013873 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 318586013874 homodimer interface [polypeptide binding]; other site 318586013875 NADP binding site [chemical binding]; other site 318586013876 substrate binding site [chemical binding]; other site 318586013877 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 318586013878 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 318586013879 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 318586013880 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 318586013881 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 318586013882 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 318586013883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013884 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 318586013885 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 318586013886 conserved cys residue [active] 318586013887 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 318586013888 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 318586013889 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 318586013890 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 318586013891 dimer interface [polypeptide binding]; other site 318586013892 conserved gate region; other site 318586013893 putative PBP binding loops; other site 318586013894 ABC-ATPase subunit interface; other site 318586013895 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 318586013896 dimer interface [polypeptide binding]; other site 318586013897 conserved gate region; other site 318586013898 putative PBP binding loops; other site 318586013899 ABC-ATPase subunit interface; other site 318586013900 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586013901 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586013902 Walker A/P-loop; other site 318586013903 ATP binding site [chemical binding]; other site 318586013904 Q-loop/lid; other site 318586013905 ABC transporter signature motif; other site 318586013906 Walker B; other site 318586013907 D-loop; other site 318586013908 H-loop/switch region; other site 318586013909 TOBE domain; Region: TOBE_2; cl01440 318586013910 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 318586013911 active site 318586013912 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 318586013913 Helix-turn-helix domains; Region: HTH; cl00088 318586013914 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 318586013915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013916 FAD dependent oxidoreductase; Region: DAO; pfam01266 318586013917 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 318586013918 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 318586013919 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 318586013920 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 318586013921 non-specific DNA binding site [nucleotide binding]; other site 318586013922 salt bridge; other site 318586013923 sequence-specific DNA binding site [nucleotide binding]; other site 318586013924 Cupin domain; Region: Cupin_2; cl09118 318586013925 Transposase, Mutator family; Region: Transposase_mut; pfam00872 318586013926 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 318586013927 active site 318586013928 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 318586013929 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318586013930 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 318586013931 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586013932 Transcriptional regulator [Transcription]; Region: IclR; COG1414 318586013933 Helix-turn-helix domains; Region: HTH; cl00088 318586013934 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586013935 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586013936 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 318586013937 dimer interface [polypeptide binding]; other site 318586013938 conserved gate region; other site 318586013939 putative PBP binding loops; other site 318586013940 ABC-ATPase subunit interface; other site 318586013941 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 318586013942 dimer interface [polypeptide binding]; other site 318586013943 conserved gate region; other site 318586013944 putative PBP binding loops; other site 318586013945 ABC-ATPase subunit interface; other site 318586013946 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586013947 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 318586013948 Walker A/P-loop; other site 318586013949 ATP binding site [chemical binding]; other site 318586013950 Q-loop/lid; other site 318586013951 ABC transporter signature motif; other site 318586013952 Walker B; other site 318586013953 D-loop; other site 318586013954 H-loop/switch region; other site 318586013955 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 318586013956 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586013957 substrate binding pocket [chemical binding]; other site 318586013958 membrane-bound complex binding site; other site 318586013959 hinge residues; other site 318586013960 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 318586013961 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 318586013962 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 318586013963 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 318586013964 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 318586013965 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 318586013966 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 318586013967 active site 318586013968 intersubunit interface [polypeptide binding]; other site 318586013969 catalytic residue [active] 318586013970 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 318586013971 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 318586013972 putative NAD(P) binding site [chemical binding]; other site 318586013973 catalytic Zn binding site [ion binding]; other site 318586013974 structural Zn binding site [ion binding]; other site 318586013975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013976 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586013977 NAD(P) binding site [chemical binding]; other site 318586013978 active site 318586013979 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 318586013980 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 318586013981 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 318586013982 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318586013983 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 318586013984 FAD dependent oxidoreductase; Region: DAO; pfam01266 318586013985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586013986 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318586013987 Flavoprotein; Region: Flavoprotein; cl08021 318586013988 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 318586013989 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 318586013990 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586013991 DNA-binding site [nucleotide binding]; DNA binding site 318586013992 UTRA domain; Region: UTRA; cl01230 318586013993 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586013994 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 318586013995 NAD(P) binding site [chemical binding]; other site 318586013996 catalytic residues [active] 318586013997 thiamine pyrophosphate protein; Validated; Region: PRK08199 318586013998 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318586013999 PYR/PP interface [polypeptide binding]; other site 318586014000 dimer interface [polypeptide binding]; other site 318586014001 TPP binding site [chemical binding]; other site 318586014002 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318586014003 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; cd00568 318586014004 TPP-binding site [chemical binding]; other site 318586014005 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586014006 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 318586014007 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586014008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586014009 Walker A/P-loop; other site 318586014010 ATP binding site [chemical binding]; other site 318586014011 Q-loop/lid; other site 318586014012 ABC transporter signature motif; other site 318586014013 Walker B; other site 318586014014 D-loop; other site 318586014015 H-loop/switch region; other site 318586014016 TOBE domain; Region: TOBE_2; cl01440 318586014017 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 318586014018 dimer interface [polypeptide binding]; other site 318586014019 conserved gate region; other site 318586014020 putative PBP binding loops; other site 318586014021 ABC-ATPase subunit interface; other site 318586014022 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 318586014023 dimer interface [polypeptide binding]; other site 318586014024 conserved gate region; other site 318586014025 putative PBP binding loops; other site 318586014026 ABC-ATPase subunit interface; other site 318586014027 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 318586014028 Protein of unknown function DUF72; Region: DUF72; cl00777 318586014029 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 318586014030 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 318586014031 putative active site [active] 318586014032 putative FMN binding site [chemical binding]; other site 318586014033 putative catalytic residue [active] 318586014034 putative substrate binding site [chemical binding]; other site 318586014035 Helix-turn-helix domains; Region: HTH; cl00088 318586014036 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 318586014037 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 318586014038 dimerization interface [polypeptide binding]; other site 318586014039 Putative ammonia monooxygenase; Region: AmoA; pfam05145 318586014040 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 318586014041 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 318586014042 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586014043 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318586014044 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318586014045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014046 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318586014047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014048 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318586014049 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 318586014050 putative DNA binding site [nucleotide binding]; other site 318586014051 putative Zn2+ binding site [ion binding]; other site 318586014052 AsnC family; Region: AsnC_trans_reg; pfam01037 318586014053 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 318586014054 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 318586014055 Walker A/P-loop; other site 318586014056 ATP binding site [chemical binding]; other site 318586014057 Q-loop/lid; other site 318586014058 ABC transporter signature motif; other site 318586014059 Walker B; other site 318586014060 D-loop; other site 318586014061 H-loop/switch region; other site 318586014062 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586014063 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 318586014064 Walker A/P-loop; other site 318586014065 ATP binding site [chemical binding]; other site 318586014066 Q-loop/lid; other site 318586014067 ABC transporter signature motif; other site 318586014068 Walker B; other site 318586014069 D-loop; other site 318586014070 H-loop/switch region; other site 318586014071 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 318586014072 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 318586014073 dimer interface [polypeptide binding]; other site 318586014074 conserved gate region; other site 318586014075 ABC-ATPase subunit interface; other site 318586014076 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586014077 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 318586014078 dimer interface [polypeptide binding]; other site 318586014079 conserved gate region; other site 318586014080 putative PBP binding loops; other site 318586014081 ABC-ATPase subunit interface; other site 318586014082 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 318586014083 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586014084 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 318586014085 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586014086 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 318586014087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014088 hypothetical protein; Provisional; Region: PRK05965 318586014089 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 318586014090 inhibitor-cofactor binding pocket; inhibition site 318586014091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586014092 catalytic residue [active] 318586014093 Cupin domain; Region: Cupin_2; cl09118 318586014094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014095 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318586014096 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 318586014097 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586014098 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318586014099 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318586014100 tetramerization interface [polypeptide binding]; other site 318586014101 NAD(P) binding site [chemical binding]; other site 318586014102 catalytic residues [active] 318586014103 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 318586014104 tartrate dehydrogenase; Provisional; Region: PRK08194 318586014105 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318586014106 NAD(P) binding site [chemical binding]; other site 318586014107 catalytic residues [active] 318586014108 Helix-turn-helix domains; Region: HTH; cl00088 318586014109 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 318586014110 putative dimerization interface [polypeptide binding]; other site 318586014111 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 318586014112 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 318586014113 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 318586014114 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 318586014115 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318586014116 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 318586014117 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 318586014118 metal binding site [ion binding]; metal-binding site 318586014119 putative dimer interface [polypeptide binding]; other site 318586014120 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 318586014121 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 318586014122 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 318586014123 Walker A motif; other site 318586014124 ATP binding site [chemical binding]; other site 318586014125 Walker B motif; other site 318586014126 arginine finger; other site 318586014127 Helix-turn-helix domains; Region: HTH; cl00088 318586014128 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 318586014129 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 318586014130 putative NAD(P) binding site [chemical binding]; other site 318586014131 catalytic Zn binding site [ion binding]; other site 318586014132 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318586014133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014134 acetoin reductases; Region: 23BDH; TIGR02415 318586014135 NAD(P) binding site [chemical binding]; other site 318586014136 active site 318586014137 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 318586014138 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 318586014139 E3 interaction surface; other site 318586014140 lipoyl attachment site [posttranslational modification]; other site 318586014141 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 318586014142 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 318586014143 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 318586014144 alpha subunit interface [polypeptide binding]; other site 318586014145 TPP binding site [chemical binding]; other site 318586014146 heterodimer interface [polypeptide binding]; other site 318586014147 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318586014148 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 318586014149 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 318586014150 tetramer interface [polypeptide binding]; other site 318586014151 TPP-binding site [chemical binding]; other site 318586014152 heterodimer interface [polypeptide binding]; other site 318586014153 phosphorylation loop region [posttranslational modification] 318586014154 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 318586014155 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 318586014156 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 318586014157 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 318586014158 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 318586014159 Domain of unknown function DUF20; Region: UPF0118; pfam01594 318586014160 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 318586014161 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 318586014162 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 318586014163 catalytic residues [active] 318586014164 L,D-transpeptidase; Provisional; Region: PRK10190 318586014165 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318586014166 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 318586014167 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 318586014168 NADP binding site [chemical binding]; other site 318586014169 dimer interface [polypeptide binding]; other site 318586014170 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 318586014171 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 318586014172 substrate binding site [chemical binding]; other site 318586014173 oxyanion hole (OAH) forming residues; other site 318586014174 trimer interface [polypeptide binding]; other site 318586014175 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 318586014176 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586014177 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 318586014178 putative ligand binding site [chemical binding]; other site 318586014179 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586014180 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586014181 DNA-binding site [nucleotide binding]; DNA binding site 318586014182 FCD domain; Region: FCD; cl11656 318586014183 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318586014184 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 318586014185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014186 CoA-ligase; Region: Ligase_CoA; cl02894 318586014187 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586014188 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 318586014189 Walker A/P-loop; other site 318586014190 ATP binding site [chemical binding]; other site 318586014191 Q-loop/lid; other site 318586014192 ABC transporter signature motif; other site 318586014193 Walker B; other site 318586014194 D-loop; other site 318586014195 H-loop/switch region; other site 318586014196 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586014197 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 318586014198 Walker A/P-loop; other site 318586014199 ATP binding site [chemical binding]; other site 318586014200 Q-loop/lid; other site 318586014201 ABC transporter signature motif; other site 318586014202 Walker B; other site 318586014203 D-loop; other site 318586014204 H-loop/switch region; other site 318586014205 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 318586014206 TM-ABC transporter signature motif; other site 318586014207 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 318586014208 TM-ABC transporter signature motif; other site 318586014209 HupE / UreJ protein; Region: HupE_UreJ; cl01011 318586014210 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 318586014211 active site residue [active] 318586014212 Cupin domain; Region: Cupin_2; cl09118 318586014213 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 318586014214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586014215 Walker A/P-loop; other site 318586014216 ATP binding site [chemical binding]; other site 318586014217 Q-loop/lid; other site 318586014218 ABC transporter signature motif; other site 318586014219 Walker B; other site 318586014220 D-loop; other site 318586014221 H-loop/switch region; other site 318586014222 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586014223 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 318586014224 dimer interface [polypeptide binding]; other site 318586014225 conserved gate region; other site 318586014226 putative PBP binding loops; other site 318586014227 ABC-ATPase subunit interface; other site 318586014228 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 318586014229 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 318586014230 substrate binding pocket [chemical binding]; other site 318586014231 membrane-bound complex binding site; other site 318586014232 hinge residues; other site 318586014233 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 318586014234 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 318586014235 active site 318586014236 non-prolyl cis peptide bond; other site 318586014237 Bacterial Ig-like domain; Region: Big_5; cl01012 318586014238 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 318586014239 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 318586014240 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 318586014241 Walker A/P-loop; other site 318586014242 ATP binding site [chemical binding]; other site 318586014243 Q-loop/lid; other site 318586014244 ABC transporter signature motif; other site 318586014245 Walker B; other site 318586014246 D-loop; other site 318586014247 H-loop/switch region; other site 318586014248 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586014249 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 318586014250 putative PBP binding loops; other site 318586014251 dimer interface [polypeptide binding]; other site 318586014252 ABC-ATPase subunit interface; other site 318586014253 NMT1-like family; Region: NMT1_2; cl15260 318586014254 NMT1/THI5 like; Region: NMT1; pfam09084 318586014255 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 318586014256 active site 318586014257 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 318586014258 dimer interface [polypeptide binding]; other site 318586014259 non-prolyl cis peptide bond; other site 318586014260 insertion regions; other site 318586014261 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 318586014262 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 318586014263 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 318586014264 serine O-acetyltransferase; Region: cysE; TIGR01172 318586014265 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 318586014266 trimer interface [polypeptide binding]; other site 318586014267 active site 318586014268 substrate binding site [chemical binding]; other site 318586014269 CoA binding site [chemical binding]; other site 318586014270 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 318586014271 dimer interface [polypeptide binding]; other site 318586014272 FMN binding site [chemical binding]; other site 318586014273 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 318586014274 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 318586014275 Helix-turn-helix domains; Region: HTH; cl00088 318586014276 Bacterial transcriptional regulator; Region: IclR; pfam01614 318586014277 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 318586014278 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 318586014279 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 318586014280 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 318586014281 dimer interface [polypeptide binding]; other site 318586014282 active site 318586014283 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 318586014284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014285 NAD(P) binding site [chemical binding]; other site 318586014286 active site 318586014287 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318586014288 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 318586014289 active site 318586014290 nucleotide binding site [chemical binding]; other site 318586014291 HIGH motif; other site 318586014292 KMSKS motif; other site 318586014293 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 318586014294 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 318586014295 putative ADP-binding pocket [chemical binding]; other site 318586014296 LicD family; Region: LicD; cl01378 318586014297 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 318586014298 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 318586014299 Walker A/P-loop; other site 318586014300 ATP binding site [chemical binding]; other site 318586014301 Q-loop/lid; other site 318586014302 ABC transporter signature motif; other site 318586014303 Walker B; other site 318586014304 D-loop; other site 318586014305 H-loop/switch region; other site 318586014306 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 318586014307 Initiator Replication protein; Region: Rep_3; cl03080 318586014308 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 318586014309 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 318586014310 P-loop; other site 318586014311 Magnesium ion binding site [ion binding]; other site 318586014312 ParB-like partition proteins; Region: parB_part; TIGR00180 318586014313 ParB-like nuclease domain; Region: ParBc; cl02129 318586014314 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 318586014315 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 318586014316 Walker A/P-loop; other site 318586014317 ATP binding site [chemical binding]; other site 318586014318 Q-loop/lid; other site 318586014319 ABC transporter signature motif; other site 318586014320 Walker B; other site 318586014321 D-loop; other site 318586014322 H-loop/switch region; other site 318586014323 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 318586014324 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586014325 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 318586014326 putative ADP-binding pocket [chemical binding]; other site 318586014327 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 318586014328 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 318586014329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014330 UDP-galactopyranose mutase; Region: GLF; pfam03275 318586014331 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 318586014332 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 318586014333 active site 318586014334 catalytic tetrad [active] 318586014335 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 318586014336 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 318586014337 phosphate binding site [ion binding]; other site 318586014338 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586014339 Helix-turn-helix domains; Region: HTH; cl00088 318586014340 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318586014341 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 318586014342 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318586014343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318586014344 Walker A/P-loop; other site 318586014345 ATP binding site [chemical binding]; other site 318586014346 Q-loop/lid; other site 318586014347 ABC transporter signature motif; other site 318586014348 Walker B; other site 318586014349 D-loop; other site 318586014350 H-loop/switch region; other site 318586014351 TOBE domain; Region: TOBE_2; cl01440 318586014352 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 318586014353 dimer interface [polypeptide binding]; other site 318586014354 conserved gate region; other site 318586014355 putative PBP binding loops; other site 318586014356 ABC-ATPase subunit interface; other site 318586014357 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 318586014358 dimer interface [polypeptide binding]; other site 318586014359 conserved gate region; other site 318586014360 putative PBP binding loops; other site 318586014361 ABC-ATPase subunit interface; other site 318586014362 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 318586014363 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 318586014364 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586014365 classical (c) SDRs; Region: SDR_c; cd05233 318586014366 NAD(P) binding site [chemical binding]; other site 318586014367 active site 318586014368 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586014369 classical (c) SDRs; Region: SDR_c; cd05233 318586014370 NAD(P) binding site [chemical binding]; other site 318586014371 active site 318586014372 putative amidase; Provisional; Region: PRK06169 318586014373 Amidase; Region: Amidase; cl11426 318586014374 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318586014375 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318586014376 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 318586014377 Walker A/P-loop; other site 318586014378 ATP binding site [chemical binding]; other site 318586014379 Q-loop/lid; other site 318586014380 ABC transporter signature motif; other site 318586014381 Walker B; other site 318586014382 D-loop; other site 318586014383 H-loop/switch region; other site 318586014384 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 318586014385 Helix-turn-helix domains; Region: HTH; cl00088 318586014386 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 318586014387 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 318586014388 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318586014389 substrate binding site [chemical binding]; other site 318586014390 ATP binding site [chemical binding]; other site 318586014391 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 318586014392 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 318586014393 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 318586014394 mannonate dehydratase; Provisional; Region: PRK03906 318586014395 mannonate dehydratase; Region: uxuA; TIGR00695 318586014396 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 318586014397 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 318586014398 phosphate binding site [ion binding]; other site 318586014399 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 318586014400 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 318586014401 putative NAD(P) binding site [chemical binding]; other site 318586014402 catalytic Zn binding site [ion binding]; other site 318586014403 DctM-like transporters; Region: DctM; pfam06808 318586014404 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 318586014405 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318586014406 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318586014407 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318586014408 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318586014409 DNA-binding site [nucleotide binding]; DNA binding site 318586014410 FCD domain; Region: FCD; cl11656 318586014411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318586014412 Helix-turn-helix domains; Region: HTH; cl00088 318586014413 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 318586014414 dimerization interface [polypeptide binding]; other site 318586014415 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 318586014416 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 318586014417 homodimer interface [polypeptide binding]; other site 318586014418 substrate-cofactor binding pocket; other site 318586014419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318586014420 catalytic residue [active] 318586014421 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 318586014422 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 318586014423 conserved cys residue [active] 318586014424 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318586014425 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 318586014426 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 318586014427 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318586014428 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 318586014429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014430 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586014431 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 318586014432 active site 318586014433 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318586014434 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 318586014435 dimer interface [polypeptide binding]; other site 318586014436 conserved gate region; other site 318586014437 ABC-ATPase subunit interface; other site 318586014438 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 318586014439 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 318586014440 putative PBP binding loops; other site 318586014441 dimer interface [polypeptide binding]; other site 318586014442 ABC-ATPase subunit interface; other site 318586014443 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 318586014444 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 318586014445 Walker A/P-loop; other site 318586014446 ATP binding site [chemical binding]; other site 318586014447 Q-loop/lid; other site 318586014448 ABC transporter signature motif; other site 318586014449 Walker B; other site 318586014450 D-loop; other site 318586014451 H-loop/switch region; other site 318586014452 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 318586014453 Walker A/P-loop; other site 318586014454 ATP binding site [chemical binding]; other site 318586014455 Q-loop/lid; other site 318586014456 ABC transporter signature motif; other site 318586014457 Walker B; other site 318586014458 D-loop; other site 318586014459 H-loop/switch region; other site 318586014460 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318586014461 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 318586014462 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318586014463 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318586014464 DNA binding site [nucleotide binding] 318586014465 domain linker motif; other site 318586014466 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 318586014467 putative dimerization interface [polypeptide binding]; other site 318586014468 putative ligand binding site [chemical binding]; other site 318586014469 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 318586014470 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 318586014471 dimer interface [polypeptide binding]; other site 318586014472 conserved gate region; other site 318586014473 putative PBP binding loops; other site 318586014474 ABC-ATPase subunit interface; other site 318586014475 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 318586014476 dimer interface [polypeptide binding]; other site 318586014477 conserved gate region; other site 318586014478 putative PBP binding loops; other site 318586014479 ABC-ATPase subunit interface; other site 318586014480 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318586014481 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 318586014482 substrate binding pocket [chemical binding]; other site 318586014483 membrane-bound complex binding site; other site 318586014484 hinge residues; other site 318586014485 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 318586014486 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 318586014487 Walker A/P-loop; other site 318586014488 ATP binding site [chemical binding]; other site 318586014489 Q-loop/lid; other site 318586014490 ABC transporter signature motif; other site 318586014491 Walker B; other site 318586014492 D-loop; other site 318586014493 H-loop/switch region; other site 318586014494 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 318586014495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014496 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 318586014497 substrate binding site [chemical binding]; other site 318586014498 ATP binding site [chemical binding]; other site 318586014499 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318586014500 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 318586014501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014502 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586014503 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318586014504 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 318586014505 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 318586014506 active site 318586014507 FMN binding site [chemical binding]; other site 318586014508 substrate binding site [chemical binding]; other site 318586014509 homotetramer interface [polypeptide binding]; other site 318586014510 catalytic residue [active] 318586014511 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318586014512 classical (c) SDRs; Region: SDR_c; cd05233 318586014513 NAD(P) binding site [chemical binding]; other site 318586014514 active site 318586014515 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318586014516 Helix-turn-helix domains; Region: HTH; cl00088 318586014517 enoyl-CoA hydratase; Provisional; Region: PRK06688 318586014518 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 318586014519 substrate binding site [chemical binding]; other site 318586014520 oxyanion hole (OAH) forming residues; other site 318586014521 trimer interface [polypeptide binding]; other site 318586014522 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318586014523 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318586014524 active site 318586014525 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 318586014526 active site 318586014527 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 318586014528 homotrimer interaction site [polypeptide binding]; other site 318586014529 putative active site [active] 318586014530 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 318586014531 AMP-binding enzyme; Region: AMP-binding; cl15778 318586014532 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318586014533 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318586014534 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 318586014535 putative ligand binding site [chemical binding]; other site 318586014536 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 318586014537 TM-ABC transporter signature motif; other site 318586014538 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 318586014539 TM-ABC transporter signature motif; other site 318586014540 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318586014541 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 318586014542 Walker A/P-loop; other site 318586014543 ATP binding site [chemical binding]; other site 318586014544 Q-loop/lid; other site 318586014545 ABC transporter signature motif; other site 318586014546 Walker B; other site 318586014547 D-loop; other site 318586014548 H-loop/switch region; other site 318586014549 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318586014550 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 318586014551 Walker A/P-loop; other site 318586014552 ATP binding site [chemical binding]; other site 318586014553 Q-loop/lid; other site 318586014554 ABC transporter signature motif; other site 318586014555 Walker B; other site 318586014556 D-loop; other site 318586014557 H-loop/switch region; other site 318586014558 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 318586014559 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 318586014560 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 318586014561 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318586014562 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 318586014563 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318586014564 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 318586014565 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 318586014566 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 318586014567 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 318586014568 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 318586014569 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 318586014570 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 318586014571 Subunit I/III interface [polypeptide binding]; other site 318586014572 Subunit III/IV interface [polypeptide binding]; other site 318586014573 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 318586014574 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 318586014575 D-pathway; other site 318586014576 Putative ubiquinol binding site [chemical binding]; other site 318586014577 Low-spin heme (heme b) binding site [chemical binding]; other site 318586014578 Putative water exit pathway; other site 318586014579 Binuclear center (heme o3/CuB) [ion binding]; other site 318586014580 K-pathway; other site 318586014581 Putative proton exit pathway; other site 318586014582 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 318586014583 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318586014584 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 318586014585 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 318586014586 putative substrate translocation pore; other site 318586014587 FOG: CBS domain [General function prediction only]; Region: COG0517 318586014588 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 318586014589 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318586014590 metal binding triad; other site 318586014591 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 318586014592 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 318586014593 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 318586014594 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 318586014595 dimer interface [polypeptide binding]; other site 318586014596 phosphorylation site [posttranslational modification] 318586014597 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 318586014598 ATP binding site [chemical binding]; other site 318586014599 Mg2+ binding site [ion binding]; other site 318586014600 G-X-G motif; other site 318586014601 Response regulator receiver domain; Region: Response_reg; pfam00072 318586014602 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 318586014603 active site 318586014604 phosphorylation site [posttranslational modification] 318586014605 intermolecular recognition site; other site 318586014606 dimerization interface [polypeptide binding]; other site 318586014607 PAS domain; Region: PAS_9; pfam13426 318586014608 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318586014609 active site 318586014610 catalytic site [active] 318586014611 substrate binding site [chemical binding]; other site 318586014612 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 318586014613 Arginase family; Region: Arginase; cl00306 318586014614 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 318586014615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 318586014616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318586014617 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318586014618 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 318586014619 Helix-turn-helix domains; Region: HTH; cl00088 318586014620 AsnC family; Region: AsnC_trans_reg; pfam01037 318586014621 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 318586014622 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 318586014623 active site 318586014624 non-prolyl cis peptide bond; other site 318586014625 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 318586014626 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 318586014627 dimer interface [polypeptide binding]; other site 318586014628 conserved gate region; other site 318586014629 putative PBP binding loops; other site 318586014630 ABC-ATPase subunit interface; other site 318586014631 NMT1-like family; Region: NMT1_2; cl15260 318586014632 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 318586014633 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 318586014634 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 318586014635 Walker A/P-loop; other site 318586014636 ATP binding site [chemical binding]; other site 318586014637 Q-loop/lid; other site 318586014638 ABC transporter signature motif; other site 318586014639 Walker B; other site 318586014640 D-loop; other site 318586014641 H-loop/switch region; other site 318586014642 RNA polymerase sigma factor; Provisional; Region: PRK12528 318586014643 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318586014644 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 318586014645 DNA binding residues [nucleotide binding] 318586014646 fec operon regulator FecR; Reviewed; Region: PRK09774 318586014647 FecR protein; Region: FecR; pfam04773 318586014648 Secretin and TonB N terminus short domain; Region: STN; cl06624 318586014649 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318586014650 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 318586014651 N-terminal plug; other site 318586014652 ligand-binding site [chemical binding]; other site 318586014653 macrolide transporter subunit MacA; Provisional; Region: PRK11578 318586014654 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 318586014655 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 318586014656 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 318586014657 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 318586014658 Walker A/P-loop; other site 318586014659 ATP binding site [chemical binding]; other site 318586014660 Q-loop/lid; other site 318586014661 ABC transporter signature motif; other site 318586014662 Walker B; other site 318586014663 D-loop; other site 318586014664 H-loop/switch region; other site 318586014665 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318586014666 FtsX-like permease family; Region: FtsX; cl15850 318586014667 Uncharacterized conserved protein [Function unknown]; Region: COG3391